Re: [Fink-users] libctl cannot installed while MEEP

[Alexander Hansen]

ble to emailing just the maintainer directly,
> since most fink package maintainers do not have access to all possible
> hardware and software configurations.
> 
> Please try to include the complete error message in your report.  This
> generally consists of a compiler line starting with e.g. "gcc" or "g++"
> followed by the actual error output from the compiler.
> 
> Also include the following system information:
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Wed Jul  5 17:42:10 2017, 10.9, x86_64
> Trees: local/main stable/main
> Xcode.app: 6.2
> Xcode command-line tools: 6.2.0.0.1.1424975374
> Max. Fink build jobs:  1
> 
> 
> ABE Hiroshi
> from Tokorozawa, JAPAN

I see the following in the config.log:

configure:12734: checking for gh_eval_str in -lguile
configure:12759: gcc-fsf-5 -o conftest -g -O2 -I/sw/include -L/sw/lib 
conftest.c -lguile  -ldl -lreadline -lm  >&5
ld: library not found for -lguile
collect2: error: ld returned 1 exit status

guile20-dev-2.0.14-1 has %p/lib/libguile-2.0.dylib rather than 
%/lib/libguile.dylib .  I’m not sure if something changed in the guile20 
package.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Failed: phase compiling: caca-0.99.beta19-4 failed

[Alexander Hansen]

> On Jun 15, 2017, at 07:33, Sean Lake <odysseus9...@gmail.com> wrote:
> 
> Hello all,
> 
> There appears to be a missing dependency in the description of 
> caca-0.99.beta19-4. I get this build error:
> 
> cd .. && /bin/sh 
> /sw/src/fink.build/caca-0.99.beta19-4/libcaca-0.99.beta19/.auto/missing 
> automake-1.14 --foreign doc/Makefile
> /sw/src/fink.build/caca-0.99.beta19-4/libcaca-0.99.beta19/.auto/missing: line 
> 81: automake-1.14: command not found
> WARNING: 'automake-1.14' is missing on your system.
> You should only need it if you modified 'Makefile.am' or
> 'configure.ac' or m4 files included by 'configure.ac'.
> The 'automake' program is part of the GNU Automake package:
> <http://www.gnu.org/software/automake>
> It also requires GNU Autoconf, GNU m4 and Perl in order to run:
> <http://www.gnu.org/software/autoconf>
> <http://www.gnu.org/software/m4/>
> <http://www.perl.org/>
> make[2]: *** [Makefile.in] Error 127
> 
> Machine info:
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Thu Jun 15 07:24:06 2017, 10.10, x86_64
> Trees: local/main stable/main
> Xcode.app: 7.2.1
> Xcode command-line tools: 7.2.0.0.1.1447826929
> Max. Fink build jobs:  1
> 
> Thanks,
> Sean Lake
> 

I’m guessing what’s missing is a build dependency on automake-1.14.  It’s nice 
when the build systems actually give informative feedback.  

If you install automake-1.14, does the build work?  

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] libdap11 build error on 10.9.5

[Alexander Hansen]

> On Jun 9, 2017, at 00:23, jfbu <j...@free.fr> wrote:
> 
> Hi,
> 
> I get the following build time error
> 
> ibtool: compile:  g++ -DHAVE_CONFIG_H -I. -I./gl -I./GNU 
> -I/sw/include/libxml2 -I/sw/include -I/sw/include -Wall -W -Wcast-align -g 
> -O2 -MT libparsers_la-Error.tab.lo -MD -MP -MF 
> .deps/libparsers_la-Error.tab.Tpo -c Error.tab.cc  -fno-common -DPIC -o 
> .libs/libparsers_la-Error.tab.o
> mv -f .deps/libparsers_la-lex.das.Tpo .deps/libparsers_la-lex.das.Plo
> /bin/sh ./libtool  --tag=CXX   --mode=compile g++ -DHAVE_CONFIG_H -I.  -I./gl 
> -I./GNU -I/sw/include/libxml2 -I/sw/include -I/sw/include  -I/sw/include 
> -Wall -W -Wcast-align  -g -O2 -MT libdapclient_la-RCReader.lo -MD -MP -MF 
> .deps/libdapclient_la-RCReader.Tpo -c -o libdapclient_la-RCReader.lo `test -f 
> 'RCReader.cc' || echo './'`RCReader.cc
> libtool: compile:  g++ -DHAVE_CONFIG_H -I. -I./gl -I./GNU 
> -I/sw/include/libxml2 -I/sw/include -I/sw/include -I/sw/include -Wall -W 
> -Wcast-align -g -O2 -MT libdapclient_la-RCReader.lo -MD -MP -MF 
> .deps/libdapclient_la-RCReader.Tpo -c RCReader.cc  -fno-common -DPIC -o 
> .libs/libdapclient_la-RCReader.o
> dds.yy:265:19: error: expected a class or namespace
>part = libdap::Part::array;
>   ^
> 1 error generated.
> make[2]: *** [Makefile:1821: libparsers_la-dds.tab.lo] Error 1
> make[2]: *** Attente des tâches non terminées
> mv -f .deps/libparsers_la-das.tab.Tpo .deps/libparsers_la-das.tab.Plo
> mv -f .deps/libparsers_la-lex.dds.Tpo .deps/libparsers_la-lex.dds.Plo
> mv -f .deps/libparsers_la-lex.ce_expr.Tpo .deps/libparsers_la-lex.ce_expr.Plo
> mv -f .deps/libparsers_la-lex.Error.Tpo .deps/libparsers_la-lex.Error.Plo
> mv -f .deps/libparsers_la-Error.tab.Tpo .deps/libparsers_la-Error.tab.Plo
> mv -f .deps/libdapclient_la-RCReader.Tpo .deps/libdapclient_la-RCReader.Plo
> mv -f .deps/libparsers_la-ce_expr.tab.Tpo .deps/libparsers_la-ce_expr.tab.Plo
> make[2] : on quitte le répertoire « 
> /sw/src/fink.build/libdap11-3.12.1-1/libdap-3.12.1 »
> make[1]: *** [Makefile:1983: all-recursive] Error 1
> make[1] : on quitte le répertoire « 
> /sw/src/fink.build/libdap11-3.12.1-1/libdap-3.12.1 »
> make: *** [Makefile:1019: all] Error 2
> ### execution of /tmp/fink.t9dp1 failed, exit code 2
> ### execution of /tmp/fink.vQ8yw failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-libdap11-3.12.1-1
> (Reading database ... 94694 files and directories currently installed.)
> Removing fink-buildlock-libdap11-3.12.1-1 ...
> Failed: phase compiling: libdap11-3.12.1-1 failed
> 
> [...]
> 
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Thu Jun  8 21:49:47 2017, 10.9, x86_64
> Trees: local/main stable/main
> Xcode.app: 6.2
> Xcode command-line tools: 6.2.0.0.1.1424975374
> Max. Fink build jobs:  8
> 
> 
> 
> This happens on a 10.9.5 (mavericks). I triggered it with
> 
> fink update libdap11
> 
> Initially I launched (yesterday...) fink update-all
> on this system left without Fink updates for a while.
> 
> About 209 new packages were installed successfully before failure with 
> libdap11
> 
> Best,
> 
> Jean-François
> 
> 

Could you try editing /sw/fink/dists/stable/main/finkinfo/sci/libdap11.info 
<http://libdap11.info/> and commenting out line 36 (perl -pi -e 'perl -pi -e 
's/part\s=\sarray/part = libdap::Part::array/‘ dds.yy’) ?  If your build 
succeeds then we’ll need to adjust the PatchScript appropriately.

Thanks!

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] request for confirmation

[Alexander Hansen]

> On Jun 9, 2017, at 09:30, Roy Mendelssohn - NOAA Federal 
>  wrote:
> 
> Thanks.
> 
> -Roy
> 


I just now got a message from SF.  I guess it’s legit. 

—Alex
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Re: [Fink-users] request for confirmation

[Alexander Hansen]

> On Jun 9, 2017, at 09:14, Roy Mendelssohn - NOAA Federal 
> <roy.mendelss...@noaa.gov> wrote:
> 
> Hi All:
> 
> I received an email purportedly from Sourceforge,  asking me to confirm my 
> interest in remains on this list.  I get so many phishing stuff like this  
> that I am always wary to reply.  Can any one confirm that this is legit?
> 
> Thanks,
> 
> -Roy
> 
> **
> "The contents of this message do not reflect any position of the U.S. 
> Government or NOAA."
> **
> Roy Mendelssohn
> Supervisory Operations Research Analyst
> NOAA/NMFS
> Environmental Research Division
> Southwest Fisheries Science Center
> ***Note new street address***
> 110 McAllister Way
> Santa Cruz, CA 95060
> Phone: (831)-420-3666
> Fax: (831) 420-3980
> e-mail: roy.mendelss...@noaa.gov www: http://www.pfeg.noaa.gov/
> 
> "Old age and treachery will overcome youth and skill."
> "From those who have been given much, much will be expected" 
> "the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
> 

That doesn’t seem normal to me.  Typically mailing lists just send out a “still 
subscribed” reminder message.  

I’d say don’t do anything and if worst comes to worst you can resubscribe.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Question about how to fix [Can't resolve dependency "x11-shlibs"]

[Alexander Hansen]

> On Jun 7, 2017, at 12:44, Shilin Xie <sl...@udel.edu> wrote:
> 
> Dear friend from fink,
> 
> Sorry for trouble you. But I did try everything I saw from FAQ but I still 
> can't fix it. When I try to install ImageMagick, it shows
> "Can't resolve dependency "x11-shlibs" for package
> "graphicsmagick1322-shlibs-1.3.25-1" (no matching packages/versions found)
> 
> And when I try to install the NetPBM, it shows 
> no package found for specification 'netbpm'
> 
> My computer is Mac Os X 10.12.5, and I did install the fink-0.41.1 package. I 
> try 
> fink selfupdate
> fink selfupdate-rsync
> fink index -f
> fink selfupdate
> 
> to fix it but it didn't work at all.
> Thank you so much! 
> You have a good day~!
> Shilin
> 

In the future, DON’T send questions to fink-users-owner, or we’ll just ignore 
you.  That address is ONLY intended for administrative issues regarding the 
fink-users mailing list.  You can use the mailing lists without subscribing, or 
subscribe (possibly without receiving email), or use the bug tracker at 
sourceforge.

You've asked two separate questions.

1)  You need to install Xquartz (https://www.xquartz.org) to get x11-shlibs and 
its related packages.  (The FAQ is out of date on this).  This is a manual 
install, rather than via Fink, for various technical reasons.
2)  There isn’t a package with just the name “netpbm” in the 10.12 
distribution. 

$ fink list netpbm
Information about 10231 packages read in 6 seconds.
 i   netpbm-bin   10.74.05-1   Graphics manipulation programs and libraries
 netpbm11 10.74.05-1   Graphics manipulation programs and libraries
 i   netpbm11-shlibs  10.74.05-1   Graphics manipulation programs and libraries

netpbm-bin contains the executables.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] coreutils install fails on mavericks

[Alexander Hansen]

> On Jun 6, 2017, at 09:16, jfbu <j...@free.fr> wrote:
> 
> Le 06/06/2017 à 17:39, Alexander Hansen a écrit :
>>> On Jun 5, 2017, at 13:38, jfbu <j...@free.fr> wrote:
>>> Undefined symbols for architecture x86_64:
>>>  "_renameat", referenced from:
>>>  _force_linkat in force-link.o
>>>  _force_symlinkat in force-link.o
>>> ld: symbol(s) not found for architecture x86_64
>>> clang: error: linker command failed with exit code 1 (use -v to see 
>>> invocation)
>> [snip]
>> How about showing us the full compiler line before the error occurs?  
>> “Similar” may not be applicable here.
> 
> Hi, sorry I lost that console output.
> 
> But I can report I have fixed my problem via these steps:
> 
> 1. cp  coreutils-8.27.tar.xz from /sw/src
> 
> 2. untar, apply the patches at
> 
>   - 
> https://github.com/macports/macports-ports/commit/61f1b0d17c631cfd25220ddb283b28a51df49927
> 
> (this means adding the missing renameat.m4, renameat.c, doing the
>  two other patches, dropping the MacPorts specific one)
> 
>   - 
> http://git.savannah.gnu.org/gitweb/?p=coreutils.git;a=commit;h=e3c51a3357cf9486040e94ee404d26af8ba7276a
> 
> (this is an edit in bootstrap.conf)
> 
> 3. tar again, cp back in /sw/src
> 
> 4. launch fink install coreutils and tell it to ignore that sha sum is wrong
> (which is dangerous in so far as malicious code could have
> been there, but then earlier attempt with the unmodified
> coreutils-8.27.tar.xz would have reported bad sha)
> 
> Success...
> 
> It worked and then I could finish installing imagemagick on my mac os
> 10.9.5
> 
> $ convert --version
> Version: ImageMagick 7.0.5-5 Q16 x86_64 2017-06-06 http://www.imagemagick.org
> Copyright: © 1999-2017 ImageMagick Studio LLC
> License: http://www.imagemagick.org/script/license.php
> Features: Cipher DPC HDRI Modules
> Delegates (built-in): bzlib cairo djvu fftw fontconfig freetype jbig jng jp2 
> jpeg lcms lqr ltdl lzma openexr png rsvg tiff webp wmf x xml zlib
> 
> I can possibly upload somewhere my own patched copy of
> coreutils-8.27.tar.xz if that is of any use to people
> 
> Jean-François
> 


Thanks.  It does indeed look like this is a 10.9-specific problem (and earlier, 
but we aren’t supporting those OS versions).  The package description for 
coreutils can be modified to apply those patches via Fink’s normal methodology, 
rather than distributing a modified tarball—we don’t generally do that.

However, if you send me the tarball, I can use that to generate the patch.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Trying to install root5 (root-5.34.36-3)

[Alexander Hansen]

> 
> On May 30, 2017, at 07:25, Tarcisio Del Prete <tarcisio.delpr...@pi.infn.it 
> <mailto:tarcisio.delpr...@pi.infn.it>> wrote:
> 
> Dear sirs,
> While installing the file root, I got the following errors, whose list I 
> append to the mail.
> I did the fink selfupdate as recommended with no success. I also reconfigured 
> fink for a single process, no success.
> The latest version of root is 6.09, any hope to have this installed with fink?
> Thanks for any help,
> Nino Del Prete.
>  
> 
> 

It’s easier for us to debug errors when we can see the entire compiler command 
that triggers them, since that can show extra flags, etc.  Also, that makes it 
more obvious which error in the cascade of messages is the first one.

> 
> In file included from cint/cint/src/dict/gcc4strm.cxx:7:
> In file included from 
> /sw/src/fink.build/root5-5.34.36-3/root/cint/cint/src/dict/gcc4strm.h:30:
> cint/cint/lib/gcc4strm/iostrm.h:85:17: error: no type named 
> '__streambuf_type' in 'std::__1::basic_ostream'
> static ostream::__streambuf_type *G__store_cout;
>~^



>^
> fatal error: too many errors emitted, stopping now [-ferror-limit=]
> 20 errors generated.
> make: *** [cint/cint/src/dict/gcc4strm.o] Error 1
> ### execution of /tmp/fink.tFbsr failed, exit code 2
> ### execution of /tmp/fink.Hr4qE failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-root5-5.34.36-3
> (Reading database ... 18533 files and directories currently installed.)
> Removing fink-buildlock-root5-5.34.36-3 ...
> Failed: phase compiling: root5-5.34.36-3 failed
> 

Another useful piece of information is the exact OS version and Xcode version.  

Unfortunately I can’t easily build test this here since it appears to be 
unavailable for 10.12 currently.
-- 
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Re: [Fink-users] Error building atk1-1.32.0-2 with Xcode 8.3.2 under macOS 10.12.5

[Alexander Hansen]

> On May 25, 2017, at 22:33, Daniel Macks <dma...@netspace.org> wrote:
> 
> 
> 
> 
> 
> On Thu, 25 May 2017 15:29:38 -0700, Alexander Hansen wrote:
> 
>>> 
>>>> On May 25, 2017, at 14:58, Philip Lamb  wrote:
>>> 
>>> 
>>> 
>>>> Scanning binaries for incorrect dyld linking...
>>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/objdump:
>>>>  'aclocal.m4': The file was not recognized as a valid object file
>>> 
>>> 
>>> 
>>> Start by updating fink-package-precedence. After Apple changed the behavior 
>>> of ‘otool’, fink-package-precedence was updated to use ‘otool-classic’ 
>>> instead, which has the classic behavior of not erroring out when 
>>> encountering a non-object file.  atk1 doesn’t have a versioned build 
>>> dependency on fink-package-precedence (yet), so it won’t automatically 
>>> update the latter’s version.
> 
> Assuming your diagnosis is correct, which sounds likely, I don't think this 
> is specific to atk1 (it's just "whatever $user happened to try to update 
> first"), so no sense having a versioned bdep for f-p-p. Given how widespread 
> f-p-p is at low-level parts of so many packages, should it become an 
> Essential:yes package so that these updates get propagated more promptly to 
> users?
> 
> dan
> 

Yeah, that’d make sense.  

—akh


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Re: [Fink-users] Error building atk1-1.32.0-2 with Xcode 8.3.2 under macOS 10.12.5

[Alexander Hansen]

> On May 25, 2017, at 14:58, Philip Lamb <p...@eden.net.nz> wrote:



> Scanning binaries for incorrect dyld linking...
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/objdump:
>  'aclocal.m4': The file was not recognized as a valid object file



Start by updating fink-package-precedence. After Apple changed the behavior of 
‘otool’, fink-package-precedence was updated to use ‘otool-classic’ instead, 
which has the classic behavior of not erroring out when encountering a 
non-object file.  atk1 doesn’t have a versioned build dependency on 
fink-package-precedence (yet), so it won’t automatically update the latter’s 
version.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Seem to have a problem installing on my new laptop

[Alexander Hansen]

> On May 23, 2017, at 13:43, Paul, Don <d.m.p...@warwick.ac.uk> wrote:
> 
> Been away for a while, now having problems installing fink on my new laptop. 
> Anyone see what I’ve done wrong, I’m sure its a silly problem but living in a 
> pc world for a while gives you funny ideas?
> 
> Don
> 
> 


> c++ -c -MD -DHAVE_CONFIG_H -D_REENTRANT 
> -I/sw/src/fink.build/apt-0.5.4-1061/apt-0.5.4/include -O2 -DEMULATE_MMAP 
> -D__USE_MISC -fconstant-cfstrings -DHAVE_SOCKLEN_T=1 -O2 -DEMULATE_MMAP 
> -D__USE_MISC -fconstant-cfstrings -DHAVE_SOCKLEN_T=1 -O2 -DEMULATE_MMAP 
> -D__USE_MISC -fconstant-cfstrings -DHAVE_SOCKLEN_T=1 -fno-common -DPIC -o 
> /sw/src/fink.build/apt-0.5.4-1061/apt-0.5.4/obj/apt-inst/debfile.opic 
> deb/debfile.cc
> dirstream.cc:18:10: fatal error: 'apt-pkg/dirstream.h' file not found
> #include 
>  ^
> 1 error generated.
> make[2]: *** 
> [/sw/src/fink.build/apt-0.5.4-1061/apt-0.5.4/obj/apt-inst/dirstream.opic] 
> Error 1
> make[2]: *** Waiting for unfinished jobs….

The above was the error. 

> 

> Also include the following system information:
> Package manager version: 0.41.1
> Distribution version: selfupdate-point (bootstrap), 10.12, x86_64
> Trees: local/main stable/main
> Xcode.app: 8.3.2
> Xcode command-line tools: 8.3.2.0.1.1492020469
> Max. Fink build jobs:  8
> 
> 
> ERROR: Bootstrap phase 2 failed!

Unfortunately, one side effect of multiple build jobs is that the console 
output doesn’t stay synchronized to any particular thread, and that can make 
error messages appear a long way away from from what actually triggered them.  

I didn’t reproduce this here with 10.12.5/Xcode Tools 8.3.2/4 jobs, so my 
initial guess is that some third-party tool might be 

Try the following:

1) Go ahead and manually run the following commands.  apt is the last package 
built, and it’s not actually mandatory for source operations, so your install 
should actually have base functionality.

$ /sw/bin/pathsetup.sh
$ fink --no-use-binary-dist selfupdate

(then select your preferred selfupdate method)

2)  Run “fink configure” and set your build jobs to 1 when it asks about that:

Enter the maximum number of simultaneous build jobs. In general, Fink will
build packages faster on systems with multiple CPUs/cores if you allow it to
spawn jobs in parallel. You have 4 active CPUs/cores on your system.
Maximum number of simultaneous build jobs: [8] *1*

3)  Try “fink -l build apt”.  With a single build job the output should be 
easier to parse.  Look for "dirstream.cc:18:10: fatal error: 
'apt-pkg/dirstream.h' file not found" again, and post a few complete output 
lines on either side of that.

This will also capture a log file in /private/tmp.  I’d recommend moving that 
to your home directory so that it won’t get lost after a reboot, just in case 
we need to delve into things more deeply.  But don’t send it to the mailing 
list, please, unless we ask for some portion of it.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] htop8 error

[Alexander Hansen]

> On May 15, 2017, at 06:50, Daren Gillespie <dgilles...@leg.ne.gov> wrote:
> 
> The htop8 package gave a m4 warning during compile. I didn't pay much 
> attention because it appeared to complete. I can run again if more 
> information is needed. When I try to run htop I get the following error.
> 
> winxpprodg:data dgillespie$ htop 
> 
> htop(94794,0x7fffa105f3c0) malloc: *** error for object 0xec403130: 
> pointer being freed was not allocated
> 
> *** set a breakpoint in malloc_error_break to debug
> 
> Abort trap: 6
> 
> 
> -- 
> Daren Gillespie
> Senior Network Administrator
> NE State Legislature
> 402-471-2553
> ———

What OS and Xcode Tools versions?  I’m seeing the same thing on 10.12 even with 
the build from the binary distribution (since it’s hard to check for runtime 
issues automatically).  

When I did a local build (10.12.5/Xcode Tools 8.3.2) I didn’t see an m4 
warning, but I did get other warnings of the following form:

In file included from ./ProcessList.h:39:
/usr/include/mach/shared_memory_server.h:48:2: warning: 
" is deprecated.  Please use 
 instead." [-W#warnings]
#warning " is deprecated.  Please use 
 instead.”

These caught my eye because they apparently involve shared memory.

I’ve cc’ed the package's maintainer.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] pdftk problem

[Alexander Hansen]

> On Mar 24, 2017, at 14:11, Giuliano Franchetti <g.franche...@gsi.de> wrote:
> 
> H to all,
> 
> I am running pdftk to split a pdf file, and an error appears.
> The is what I see in the screen.
> 
> giuliano@visitor-18867203.dyndns:/Users/giuliano/Desktop/test>
> giuliano@visitor-18867203.dyndns:/Users/giuliano/Desktop/test> pdftk aa.pdf 
> burst output ppp_page_1%04d.pdf
> libgcj failure: gcj linkage error.
> Incorrect library ABI version detected.  Aborting.
> 
> Abort trap: 6
> giuliano@visitor-18867203.dyndns:/Users/giuliano/Desktop/test>
> 
> 
> Do anybody has a suggestion on how to correct the problem?
> 
> Thank you in advance
> 
>   Giuliano
> 
> 

If you installed pdftk from the binary distribution, make sure that your 
gcc5-shlibs has also been updated.  If you have an older version of gcc5-shlibs 
than pdftk was built with, that could account for this error.

Also, if you’re overriding the linker path (e.g. via DYLD_LIBRARY_PATH), it 
might be finding a different libgcj.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] hdf5 and netcdf4 install with --enable-parallel

[Alexander Hansen]

> On Feb 25, 2017, at 04:25, Sylvain Barbot <sylbar.vain...@gmail.com> wrote:
> 
> Hi All,
> 
> Is it possible to install hdf5 and netcdf4 with the --enable-parallel option?
> 
> I originally installed these libraries on fink before I installed
> openmpi or any other MPI implementation. If the --enable-parallel
> option is available for hdf5 and netcdf on fink, how do I go back and
> recompile with this option selected?
> 
> Thanks,
> Sylvain

You’d need to modify the package descriptions.  You can find the description 
file for a particular package using “fink dumpinfo -finfofile ”.  
Patch files, if any, will be in the same directory.

I’d recommend copying the existing .info and .patch files to 
/sw/fink/dists/local/main/finkinfo so that they don’t get overwritten, and also 
raising the Revision by .1

The configuration options are generally applied using the ConfigureParams 
line—or possibly in the CompileScript directly.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Error installing atlas

[Alexander Hansen]

-zlib --program-suffix=-fsf-5
> Thread model: posix
> gcc version 5.4.0 (GCC)
> /sw/src/fink.build/atlas-3.10.2-3/opt-bin/gcc -V 2>&1  >>
> bin/INSTALL_LOG/ERROR.LOG
> gcc: error: unrecognized command line option '-V'
> gcc: fatal error: no input files
> compilation terminated.
> make[4]: [error_report] Error 1 (ignored)
> /sw/src/fink.build/atlas-3.10.2-3/opt-bin/gcc --version 2>&1  >>
> bin/INSTALL_LOG/ERROR.LOG
> tar cf error_Corei264AVX.tar Make.inc bin/INSTALL_LOG/*
> bzip2 error_Corei264AVX.tar
> Error report error_.tgz has been created in your top-level ATLAS
> directory.  Be sure to include this file in any help request.
> cat: ../../CONFIG/error.txt: No such file or directory
> cat: ../../CONFIG/error.txt: No such file or directory
> make[1]: *** [build] Error 255
> make: *** [build] Error 2
> ### execution of /tmp/fink.iIQZ6 failed, exit code 2
> ### execution of /tmp/fink.xspc5 failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-atlas-3.10.2-3
> (Reading database ... 192286 files and directories currently installed.)
> Removing fink-buildlock-atlas-3.10.2-3 ...
> Failed: phase compiling: atlas-3.10.2-3 failed
> Before reporting any errors, please run "fink selfupdate" and try again.
> 
> If you continue to have issues, please check to see if the FAQ on Fink's
> website solves the problem.  If not, ask on one (not both, please) of
> these mailing lists:
> 
>The Fink Users List <fink-users@lists.sourceforge.net>
>The Fink Beginners List <fink-beginn...@lists.sourceforge.net>.
> 
> Please try to include the complete error message in your report.  This
> generally consists of a compiler line starting with e.g. "gcc" or "g++"
> followed by the actual error output from the compiler.
> 
> Also include the following system information:
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Thu Feb 23 22:41:48 2017, 10.9, x86_64
> Trees: local/main stable/main
> Xcode.app: 6.2
> Xcode command-line tools: 6.2.0.0.1.1424975374
> atlas-3.10.2-3 is set to build with only one job.
> 
> 
> Thank you for your feedback.
> Sylvain

Sorry, I can’t help test this.  I only have 10.9 on a VMware image, and atlas 
didn't build on that when I tried it last.  \

What hardware are you using (e.g. from “sysctl hw.model)?  Atlas is very 
sensitive to the details of the hardware.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Got a suspicious phishing email

[Alexander Hansen]

Yup.  I believe sourceforge does do some filtering, but we still have messages 
from entities who aren’t subscribed to the list that require human intervention 
to decide whether they’re legitimate or not.  It’s surprisingly easy to click 
on the wrong button when moderating the queued messages.  

Phishing messages can come from compromised accounts of real subscribers, too.  
We’re able to remove and ban subscribed addresses in the event that such a 
thing happens.  

So, to the best of our knowledge, the mailing lists are fine.  

—akh

> On Feb 1, 2017, at 07:17, Hisashi T Fujinaka  wrote:
> 
> You get what you pay for. Sometimes suspicious emails leak through.
> 
> On Wed, 1 Feb 2017, Alan wrote:
> 
>> Hi, I am just checking if the list is ok because I got a suspicious email:
>> --
>> Hi fink-users@lists.sourceforge.net,
>> 
>> Please note your account would be temporarily locked due to some certain 
>> updates with your server.?
>> 
>> Kindly Click here to unlock and continue your free usage by verifying you 
>> are the owner of this account.
>> 
>> Ignorance will lead to temporary suspension of your service provision
>> 
>> NOTE: This is a one time user verification carried out in purpose to provide 
>> a more secured platform and shut down robot or
>> malicious users created in purpose of spamming and other fraudulent 
>> activities.?
>> 
>> Best,
>> (C) 2017 Mail. All rights reserved. NMLSR ID 399801
>> --
>> 
>> The 'Click here' link raised a warning in my Gmail account and Antivirus 
>> detector.
>> 
>> Thanks,
>> 
>> Alan
>> --
>> Alan Wilter SOUSA da SILVA, DScSenior Bioinformatician, UniProt
>> European Bioinformatics Institute (EMBL-EBI)
>> European Molecular Biology Laboratory
>> Wellcome Trust Genome Campus
>> Hinxton
>> Cambridge CB10 1SD
>> United Kingdom
>> Tel: +44 (0)1223 494588
>> 
>> 
> 
> -- 
> Hisashi T Fujinaka - ht...@twofifty.com 
> BSEE + BSChem + BAEnglish + MSCS + $2.50 = coffee
> 

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Re: [Fink-users] Root5 udate error

[Alexander Hansen]

> On Jan 22, 2017, at 03:06, Luigi Ernesto Zanotti <luigi.zano...@mib.infn.it> 
> wrote:
> 
> Dear all,
> since a week, when I run "update-all' I get the follwing sequence of 
> errors while updating Root5.
> I'm looking for a suggestion to solve the problem. Removing roo5 and 
> annexes didn't work.
> Many thanks in advance,
> Luigi Zanotti
> 
> ——
> 

I see this, too.  For a bit more context:

g++ -O2 -m64 -pipe -W -Wall -Woverloaded-virtual -fsigned-char -fno-common 
-Iinclude -DR__HAVE_CONFIG  -I/sw/include -DG__REGEXP -DG__UNIX -DG__SHAREDLIB 
-DG__ROOT -DG__REDIRECTIO -DG__OSFDLL -DG__STD_EXCEPTION-DG__HAVE_CONFIG 
-DG__NOMAKEINFO -DG__CINTBODY  
-I/sw/src/fink.build/root5-5.34.36-3/root/cint/cint/inc 
-I/sw/src/fink.build/root5-5.34.36-3/root/cint/cint/src 
-I/sw/src/fink.build/root5-5.34.36-3/root/cint/cint/src/dict -pthread 
-Icint/cint/lib/gcc4strm -Wno-strict-aliasing -I. -o 
cint/cint/src/dict/gcc4strm.o -c cint/cint/src/dict/gcc4strm.cxx

> In file included from cint/cint/src/dict/gcc4strm.cxx:7:
> In file included from 
> /sw/src/fink.build/root5-5.34.36-3/root/cint/cint/src/dict/gcc4strm.h:30:
> cint/cint/lib/gcc4strm/iostrm.h:85:17: error: no type named 
> '__streambuf_type' in
>   'std::__1::basic_ostream'
> static ostream::__streambuf_type *G__store_cout;
>~^



> ---
> Also include the following system information:
> Package manager version: 0.41.1
> Distribution version: selfupdate-cvs Fri Jan 20 13:24:45 2017, 10.12, x86_64
> Trees: local/main stable/main stable/crypto local/injected
> Xcode.app: 8.2.1
> Xcode command-line tools: 8.2.0.0.1.1480973914
> Max. Fink build jobs:  1
> 
> -- 
> 
> Prof. Luigi Ernesto Zanotti
> 
> Physics Department "G. Occhialini"
> University of Milano Bicocca
> 
> Piazza della Scienza 3. 20126 Milano Italy
> Tel. +39 02 6448 2413
> E-Mail: luigi.zano...@mib.infn.it
> 
> 

Maybe something changed in Xcode such that this doesn’t work anymore?
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Failed: phase compiling: xrootd4-4.5.0-1 failed

[Alexander Hansen]

> On Jan 11, 2017, at 16:09, Sean Lake <odysseus9...@gmail.com> wrote:
> 
> 
>> On Jan 11, 2017, at 9:48, Alexander Hansen <alexanderk.han...@gmail.com> 
>> wrote:
>> 
>> 
>>> On Jan 11, 2017, at 09:35, Sean Lake <odysseus9...@gmail.com> wrote:
>>> 
>>>> 
>>>> On Jan 9, 2017, at 15:30, Sean Lake <odysseus9...@gmail.com> wrote:
>>>> 
>>>> Hello all,
>>>> 
>>>> I'm trying to update root, and I run into the following build error. Is 
>>>> the problem a missing dependency?
>>>> 
>>>> [ 40%] Building CXX object 
>>>> src/CMakeFiles/XrdHttp-4.dir/XrdHttp/XrdHttpProtocol.cc.o
>>>> In file included from 
>>>> /sw/src/fink.build/xrootd4-4.5.0-1/xrootd-4.5.0/src/XrdHttp/XrdHttpProtocol.cc:36:
>>>> /sw/src/fink.build/xrootd4-4.5.0-1/xrootd-4.5.0/src/XrdHttp/XrdHttpProtocol.hh:51:10:
>>>>  fatal error: 
>>>>   'openssl/ssl.h' file not found
>>>> #include 
>>>>  ^
>>>> 1 error generated.
>>>> 
>>>> System info:
>>>> 
>>>> Package manager version: 0.41.1
>>>> Distribution version: selfupdate-rsync Mon Jan  9 15:24:59 2017, 10.10, 
>>>> x86_64
>>>> Trees: local/main stable/main
>>>> Xcode.app: 7.2.1
>>>> Xcode command-line tools: 7.2.0.0.1.1447826929
>>>> Max. Fink build jobs:  1
>>>> 
>>>> Thanks,
>>>> Sean Lake
>>> 
>>> 
>>> For what it's worth, I'm still getting this error.
>>> 
>>> Distribution version: selfupdate-rsync Wed Jan 11 09:32:31 2017, 10.10, 
>>> x86_64
>>> Trees: local/main stable/main
>>> Xcode.app: 7.2.1
>>> Xcode command-line tools: 7.2.0.0.1.1447826929
>>> Max. Fink build jobs:  1
>>> 
>>> Thanks,
>>> Sean Lake
>> 
>> 
>> Since 10.10 still has a system OpenSSL, I’m guessing the issue might the 
>> opposite of a missing dependency, where the build process finds the system’s 
>> openssl rather than Fink’s openssl100.  
>> 
>> Let’s start at the configuration stage of the build and look for what you 
>> have at the following point:
>> 
>> -- Found OpenSSL: /sw/lib/libssl.dylib;/sw/lib/libcrypto.dylib  
>> -- Looking for TLSv1_2_method
>> -- Looking for TLSv1_2_method - found
>> -- Looking for TLSv1_1_method
>> -- Looking for TLSv1_1_method - found
>> -- Looking for TLSv1_method
>> -- Looking for TLSv1_method - found
>> -- Found KERBEROS5: /usr/lib/libkrb5.dylib;/usr/lib/libcom_err.dylib  
>> 
>> -- 
>> Alexander Hansen, Ph.D.
>> Fink User Liaison
>> 
> 
> 
> The output in that section is:
> 
> -- Found OpenSSL: /usr/lib/libssl.dylib;/usr/lib/libcrypto.dylib  
> -- Looking for TLSv1_2_method
> -- Looking for TLSv1_2_method - not found
> -- Looking for TLSv1_1_method
> -- Looking for TLSv1_1_method - not found
> -- Looking for TLSv1_method
> -- Looking for TLSv1_method - found
> -- Found KERBEROS5: /usr/lib/libkrb5.dylib;/usr/lib/libcom_err.dylib
> 
> Thanks,
> Sean Lake

Someone saw the same thing on 10.11, too.  There may be some subtlety in the 
OpenSSL detection that isn’t immediately obvious.



-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Failed: phase compiling: xrootd4-4.5.0-1 failed

[Alexander Hansen]

> On Jan 11, 2017, at 09:35, Sean Lake <odysseus9...@gmail.com> wrote:
> 
>> 
>> On Jan 9, 2017, at 15:30, Sean Lake <odysseus9...@gmail.com> wrote:
>> 
>> Hello all,
>> 
>> I'm trying to update root, and I run into the following build error. Is the 
>> problem a missing dependency?
>> 
>> [ 40%] Building CXX object 
>> src/CMakeFiles/XrdHttp-4.dir/XrdHttp/XrdHttpProtocol.cc.o
>> In file included from 
>> /sw/src/fink.build/xrootd4-4.5.0-1/xrootd-4.5.0/src/XrdHttp/XrdHttpProtocol.cc:36:
>> /sw/src/fink.build/xrootd4-4.5.0-1/xrootd-4.5.0/src/XrdHttp/XrdHttpProtocol.hh:51:10:
>>  fatal error: 
>> 'openssl/ssl.h' file not found
>> #include 
>>^
>> 1 error generated.
>> 
>> System info:
>> 
>> Package manager version: 0.41.1
>> Distribution version: selfupdate-rsync Mon Jan  9 15:24:59 2017, 10.10, 
>> x86_64
>> Trees: local/main stable/main
>> Xcode.app: 7.2.1
>> Xcode command-line tools: 7.2.0.0.1.1447826929
>> Max. Fink build jobs:  1
>> 
>> Thanks,
>> Sean Lake
> 
> 
> For what it's worth, I'm still getting this error.
> 
> Distribution version: selfupdate-rsync Wed Jan 11 09:32:31 2017, 10.10, x86_64
> Trees: local/main stable/main
> Xcode.app: 7.2.1
> Xcode command-line tools: 7.2.0.0.1.1447826929
> Max. Fink build jobs:  1
> 
> Thanks,
> Sean Lake


Since 10.10 still has a system OpenSSL, I’m guessing the issue might the 
opposite of a missing dependency, where the build process finds the system’s 
openssl rather than Fink’s openssl100.  

Let’s start at the configuration stage of the build and look for what you have 
at the following point:

-- Found OpenSSL: /sw/lib/libssl.dylib;/sw/lib/libcrypto.dylib  
-- Looking for TLSv1_2_method
-- Looking for TLSv1_2_method - found
-- Looking for TLSv1_1_method
-- Looking for TLSv1_1_method - found
-- Looking for TLSv1_method
-- Looking for TLSv1_method - found
-- Found KERBEROS5: /usr/lib/libkrb5.dylib;/usr/lib/libcom_err.dylib  

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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[Fink-users] build error with osxfuse on 10.12 Re: Fink does not compile sshfs

[Alexander Hansen]

e_sysctl.c normal x86_64 c com.apple.compilers.llvm.clang.1_0.compiler
> cd /sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c
> export LANG=en_US.US-ASCII
> 
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang
>  -x c -arch x86_64 -fmessage-length=361 -fdiagnostics-show-note-include-stack 
> -fmacro-backtrace-limit=0 -fcolor-diagnostics -nostdinc -fno-builtin 
> -Wno-trigraphs -msoft-float -Os -fno-common -mkernel -Werror 
> -Werror-implicit-function-declaration -Wno-missing-field-initializers 
> -Wmissing-prototypes -Wmissing-braces -Wparentheses -Wswitch 
> -Wunused-function -Wunused-label -Wunused-parameter -Wunused-variable 
> -Wunused-value -Wno-empty-body -Wuninitialized -Wunknown-pragmas -Wshadow 
> -Wno-four-char-constants -Wno-conversion -Wno-constant-conversion 
> -Wno-int-conversion -Wno-bool-conversion -Wno-enum-conversion -Wsign-compare 
> -Wshorten-64-to-32 -Wpointer-sign -Wnewline-eof -DKERNEL -DKERNEL_PRIVATE 
> -DDRIVER_PRIVATE -DAPPLE -DNeXT -isysroot 
> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk
>  -fasm-blocks -fstrict-aliasing -Wdeprecated-declarations 
> -mmacosx-version-min=10.12 -g -Wno-sign-conversion -Wno-infinite-recursion 
> -I/sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/osxfusefs.build/Release/osxfusefs.build/osxfusefs.hmap
>  
> -I/sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/Release/include
>  
> -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/System/Library/Frameworks/Kernel.framework/PrivateHeaders
>  
> -I/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/System/Library/Frameworks/Kernel.framework/Headers
>  
> -I/sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/osxfusefs.build/Release/osxfusefs.build/DerivedSources/x86_64
>  
> -I/sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/osxfusefs.build/Release/osxfusefs.build/DerivedSources
>  -F/sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/Release 
> -DOSXFUSE_ENABLE_MACFUSE_MODE=1 -MMD -MT dependencies -MF 
> /sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/osxfusefs.build/Release/osxfusefs.build/Objects-normal/x86_64/fuse_sysctl.d
>  --serialize-diagnostics 
> /sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/osxfusefs.build/Release/osxfusefs.build/Objects-normal/x86_64/fuse_sysctl.dia
>  -c /sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/fuse_sysctl.c -o 
> /sw/src/fink.build/osxfuse-2.7.0-1/osxfuse-kext-122937c/build/osxfusefs.build/Release/osxfusefs.build/Objects-normal/x86_64/fuse_sysctl.o
> 
> ** BUILD FAILED **
> 
> 
> The following build commands failed:
>   CompileC 
> build/osxfusefs.build/Release/osxfusefs.build/Objects-normal/x86_64/fuse_nodehash.o
>  fuse_nodehash.c normal x86_64 c com.apple.compilers.llvm.clang.1_0.compiler
> (1 failure)
> ### execution of /tmp/fink.YH36w failed, exit code 65
> ### execution of /tmp/fink.vDUKq failed, exit code 65
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-osxfuse-2.7.0-1
> (Reading database ... 54258 files and directories currently installed.)
> Removing fink-buildlock-osxfuse-2.7.0-1 ...
> Failed: phase compiling: osxfuse-2.7.0-1 failed
> 
> Before reporting any errors, please run "fink selfupdate" and try again.
> Also try using "fink configure" to set your maximum build jobs to 1 and
> attempt to build the package again.
> If you continue to have issues, please check to see if the FAQ on Fink's 
> website solves the problem.  If not, ask on one (not both, please) of
> these mailing lists:
> 
>   The Fink Users List <fink-users@lists.sourceforge.net>
>   The Fink Beginners List <fink-beginn...@lists.sourceforge.net>,
> 
> with a carbon copy to the maintainer:
> 
>   Brendan Cully <f...@brendan.cully.org>
> 
> Note that this is preferable to emailing just the maintainer directly,
> since most fink package maintainers do not have access to all possible
> hardware and software configurations.
> 
> Please try to include the complete error message in your report.  This
> generally consists of a compiler line starting with e.g. "gcc" or "g++"
> followed by the actual error output from the compiler.
> 
> Also include the following system information:
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Fri Jan  6 05:10:44 2017, 10.12, x86_64
> Trees: local/main stable/main
> Xcode.app: 8.2.1
> Xcode command-line tools: 8.2.0.0.1.1480973914
> Max. Fink build jo

[Fink-users] Not obviously related build failure in gcc5-5.4.0-3

[Alexander Hansen]

This doesn’t look like the same issue that was reported on this list previously 
( https://sourceforge.net/p/fink/mailman/message/35550099/ )

My system and fink items are:

Package manager version: 0.41.1
Distribution version: selfupdate-cvs Wed Dec 14 10:46:20 2016, 10.12, x86_64
Trees: local/main stable/main stable/crypto local/injected
Xcode.app: 8.2
Xcode command-line tools: 8.2.0.0.1.1480973914
Max. Fink build jobs:  1

Abbreviated transcript:

libtool: link:  /sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/./gcc/xgcc 
-shared-libgcc -B/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/./gcc 
-nostdinc++ 
-L/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/x86_64-apple-darwin16.3.0/libstdc++-v3/src
 
-L/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/x86_64-apple-darwin16.3.0/libstdc++-v3/src/.libs
 
-L/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/x86_64-apple-darwin16.3.0/libstdc++-v3/libsupc++/.libs
 -B/sw/lib/gcc5/x86_64-apple-darwin16.3.0/bin/ 
-B/sw/lib/gcc5/x86_64-apple-darwin16.3.0/lib/ -isystem 
/sw/lib/gcc5/x86_64-apple-darwin16.3.0/include -isystem 
/sw/lib/gcc5/x86_64-apple-darwin16.3.0/sys-include-dynamiclib 
-Wl,-undefined -Wl,dynamic_lookup -o .libs/libstdc++.6.dylib  
.libs/compatibility.o .libs/compatibility-debug_list.o 
.libs/compatibility-debug_list-2.o .libs/compatibility-c++0x.o 
.libs/compatibility-atomic-c++0x.o .libs/compatibility-thread-c++0x.o 
.libs/compatibility-chrono.o .libs/compatibility-condvar.o   
.libs/libstdc++.lax/libsupc++convenience.a/array_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/atexit_arm.o 
.libs/libstdc++.lax/libsupc++convenience.a/atexit_thread.o 
.libs/libstdc++.lax/libsupc++convenience.a/bad_alloc.o 
.libs/libstdc++.lax/libsupc++convenience.a/bad_array_length.o 
.libs/libstdc++.lax/libsupc++convenience.a/bad_array_new.o 
.libs/libstdc++.lax/libsupc++convenience.a/bad_cast.o 
.libs/libstdc++.lax/libsupc++convenience.a/bad_typeid.o 
.libs/libstdc++.lax/libsupc++convenience.a/class_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/cp-demangle.o 
.libs/libstdc++.lax/libsupc++convenience.a/del_op.o 
.libs/libstdc++.lax/libsupc++convenience.a/del_opnt.o 
.libs/libstdc++.lax/libsupc++convenience.a/del_ops.o 
.libs/libstdc++.lax/libsupc++convenience.a/del_opv.o 
.libs/libstdc++.lax/libsupc++convenience.a/del_opvnt.o 
.libs/libstdc++.lax/libsupc++convenience.a/del_opvs.o 
.libs/libstdc++.lax/libsupc++convenience.a/dyncast.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_alloc.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_arm.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_aux_runtime.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_call.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_catch.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_exception.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_globals.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_personality.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_ptr.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_term_handler.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_terminate.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_throw.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_tm.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_type.o 
.libs/libstdc++.lax/libsupc++convenience.a/eh_unex_handler.o 
.libs/libstdc++.lax/libsupc++convenience.a/enum_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/function_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/fundamental_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/guard.o 
.libs/libstdc++.lax/libsupc++convenience.a/guard_error.o 
.libs/libstdc++.lax/libsupc++convenience.a/hash_bytes.o 
.libs/libstdc++.lax/libsupc++convenience.a/nested_exception.o 
.libs/libstdc++.lax/libsupc++convenience.a/new_handler.o 
.libs/libstdc++.lax/libsupc++convenience.a/new_op.o 
.libs/libstdc++.lax/libsupc++convenience.a/new_opnt.o 
.libs/libstdc++.lax/libsupc++convenience.a/new_opv.o 
.libs/libstdc++.lax/libsupc++convenience.a/new_opvnt.o 
.libs/libstdc++.lax/libsupc++convenience.a/pbase_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/pmem_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/pointer_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/pure.o 
.libs/libstdc++.lax/libsupc++convenience.a/si_class_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/tinfo.o 
.libs/libstdc++.lax/libsupc++convenience.a/tinfo2.o 
.libs/libstdc++.lax/libsupc++convenience.a/vec.o 
.libs/libstdc++.lax/libsupc++convenience.a/vmi_class_type_info.o 
.libs/libstdc++.lax/libsupc++convenience.a/vterminate.o  
.libs/libstdc++.lax/libc++98convenience.a/allocator-inst.o 
.libs/libstdc++.lax/libc++98convenience.a/atomicity.o 
.libs/libstdc++.lax/libc++98convenience.a/basic_file.o 
.libs/libstdc++.lax/libc++98convenience.a/bitmap_allocator.o 
.libs/libstdc++.lax/libc++98convenience.a/c++locale.o 
.libs/libstdc++.lax/libc++98convenience.a/codecvt.o 
.libs/libstdc++.lax/libc++98convenience.a/codecvt_members.o 

Re: [Fink-users] Problems compiling gcc5-5.4.0-3 on Mac OSX 10.12

[Alexander Hansen]

> On Dec 19, 2016, at 03:09, Jack Howarth <howarth.at.f...@gmail.com> wrote:
> 
> Gaby,
>Can you post a full fink build log for this gcc5 build failure? I
> just did a clean bootstrap of fink from the sandbox-build fink git
> branch (https://github.com/fink/fink/tree/sandbox-build) on 10.12 and
> neither 'fink -m install gcc5' nor 'fink -m install gcc6' had any
> issues on a MacPro 3,1 with 8 cores.
>   Jack
> ps It would also be interesting to know if there is any difference in
> the build failures on whether you have fink make installed.
> 

Umm, we don’t really want a full log sent to the mailing list if we can avoid 
it.  

And recent versions of fink default to /usr/bin/make unless explicitly 
instructed otherwise in the .info file.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


--
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Re: [Fink-users] Problems compiling gcc5-5.4.0-3 on Mac OSX 10.12

[Alexander Hansen]

> On Dec 14, 2016, at 11:35, Gabriella Turek <gabriella.tu...@niwa.co.nz> wrote:
> 
> Thanx Alexander,  how do I invoke that option? 
> Gaby
> 

You can integrate that functionality automatically in the fink command by 
running “fink configure” and electing to use the binary distribution when 
asked.  Otherwise you can use “fink --use-binary install “ or "sudo 
apt-get install ”.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Problems compiling gcc5-5.4.0-3 on Mac OSX 10.12

[Alexander Hansen]

> On Dec 13, 2016, at 18:03, Gabriella Turek <gabriella.tu...@niwa.co.nz> wrote:
> 
> 
> Hi all, I have updated my OS to Sierra, so I am updating and all my fink 
> packages.
> All was going well until it failed to compile gcc5-5.4.0-3
> The error message is:
> 
> 
> ../../../gcc-5.4.0/libgomp/config/posix/time.c: In function 'omp_get_wtime':
> ../../../gcc-5.4.0/libgomp/config/posix/time.c:54:5: error: implicit 
> declaration of function 'clock_gettime' 
> [-Werror=implicit-function-declaration]
> clock_gettime (CLOCK_REALTIME, );
> ^
> ../../../gcc-5.4.0/libgomp/config/posix/time.c:54:20: error: 'CLOCK_REALTIME' 
> undeclared (first use in this function)
> clock_gettime (CLOCK_REALTIME, );
>^
> ../../../gcc-5.4.0/libgomp/config/posix/time.c:54:20: note: each undeclared 
> identifier is reported only once for each function it appears in
> ../../../gcc-5.4.0/libgomp/config/posix/time.c: In function 'omp_get_wtick':
> ../../../gcc-5.4.0/libgomp/config/posix/time.c:71:5: error: implicit 
> declaration of function 'clock_getres' [-Werror=implicit-function-declaration]
> clock_getres (CLOCK_REALTIME, );
> ^
> ../../../gcc-5.4.0/libgomp/config/posix/time.c:71:19: error: 'CLOCK_REALTIME' 
> undeclared (first use in this function)
> clock_getres (CLOCK_REALTIME, );
>   ^
> cc1: all warnings being treated as errors
> Makefile:613: recipe for target 'time.lo' failed
> make[5]: *** [time.lo] Error 1
> make[5]: Leaving directory 
> '/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/x86_64-apple-darwin16.1.0/libgomp'
> Makefile:857: recipe for target 'all-recursive' failed
> make[4]: *** [all-recursive] Error 1
> make[4]: Leaving directory 
> '/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/x86_64-apple-darwin16.1.0/libgomp'
> Makefile:451: recipe for target 'all' failed
> make[3]: *** [all] Error 2
> make[3]: Leaving directory 
> '/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir/x86_64-apple-darwin16.1.0/libgomp'
> Makefile:19144: recipe for target 'all-stage1-target-libgomp' failed
> make[2]: *** [all-stage1-target-libgomp] Error 2
> make[2]: Leaving directory '/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir'
> Makefile:20771: recipe for target 'stage1-bubble' failed
> make[1]: *** [stage1-bubble] Error 2
> make[1]: Leaving directory '/sw/src/fink.build/gcc5-5.4.0-3/darwin_objdir'
> Makefile:21086: recipe for target 'bootstrap-lean' failed
> make: *** [bootstrap-lean] Error 2
> ### execution of /tmp/fink.IJEZq failed, exit code 2
> ### execution of /tmp/fink.OMfbS failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-gcc5-5.4.0-3
> (Reading database ... 78075 files and directories currently installed.)
> Removing fink-buildlock-gcc5-5.4.0-3 ...
> Failed: phase compiling: gcc5-5.4.0-3 failed
> 
> Additional info:
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Wed Dec 14 10:54:53 2016, 10.12, x86_64
> Trees: local/main stable/main local/injected
> Xcode.app: 8.2
> Xcode command-line tools: 8.2.0.0.1.1480973914
> Max. Fink build jobs:  1
> 
> 
> Thanx
> Gaby
> 


I got a different error on my build attempt.  I’m trying again with a single 
job to see if that changes anything.

You have the option to install the same version of gcc5 from the binary 
distribution, however, so I’d recommend that as a way to get this updated 
quickly.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Build of octave-3.8.2-11 failed

[Alexander Hansen]

> On Dec 5, 2016, at 07:39, Alexander Hansen <alexanderk.han...@gmail.com> 
> wrote:
> 
> 
> 

> I didn’t notice the message on the 21st, sorry.  
> 
> “fink dumpinfo -finfofile ” will give you the correct path to 
> whatever .info file fink is actually using—this is particularly useful when 
> you’re using the local directory.  
> 
> One note:  Fink caches the .info file, so it’s possible that Gary might be 
> using the cached version.  Try using “fink index -f” to rebuild the cache.
> 
> 
> 

I just had a chance to make an update in the distribution.  The revision of the 
package remains unchanged.  

You can run “fink dumpinfo -fcompilescript octave” to dump the compile script 
and verify that “ac_cv_func_mkostemp=no” has been appended.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Build of octave-3.8.2-11 failed

[Alexander Hansen]

> On Dec 5, 2016, at 02:35, Jacques Bloch  wrote:
> 
> Dear Gary,
> 
> I submitted the same error report on Nov 21 but never got a reply. I was 
> aware that Homebrew had encountered the same error, but did not know how to 
> get around it with Fink, as I am not really an expert with the file structure 
> and build procedure of Fink. However, armed with your hint about where to 
> make the change suggested by Martin, I was able to get Octave to build. All I 
> did was indeed to replace line 251 in: 
> "/sw/fink/10.9-libcxx/stable/main/finkinfo/sci/octave-3.8.2.info 
> ” from
> ./configure %c
> to
> ./configure %c "ac_cv_func_mkostemp=no”
> 
> "fink update-all" then did the job properly and built octave 3.8.2-11.
> 
> Not sure why this does not work for you. Did you modify the current info 
> file? (I had trouble to find the info file at all).
> 
> Note: /sw/fink/dists is linked to /sw/fink/10.12 which is linked in turn to 
> /sw/fink/10.9-libcxx.
> 
> Good luck,
> Jacques
> 
> ---
> Dr. Jacques C.R. Bloch
> Institute for Theoretical Physics
> University of Regensburg
> 93040 Regensburg, Germany
> tel: +49 941 943-2018
> fax: +49 941 943-3887
> email: jacques.bl...@ur.de 
> web: http://homepages.uni-regensburg.de/~blj05290 
> 
> 
> 
> 
>> On 4 Dec 2016, at 22:56, Gary K. Olson > > wrote:
>> 
>> On Dec 4, 2016, at 2:04 PM MDT, Gary Olson > > replied: 
>> 
>>> On Dec 3, 2016, at 4:08 PM, Martin Costabel >> > wrote:
>> 
>> 
>>> This is a bug that homebrew and macports also have noticed, caused by the 
>>> new function mkostemp in Sierra that octave doesn't yet know about. Octave 
>>> uses its own stdlib.h that does not have this function. A workaround is to 
>>> run configure as
>> 
>>> 
>> 
>>> ./configure %c "ac_cv_func_mkostemp=no"
>> 
>>> 
>> 
>>> With this, it built for me (after I updated fink-package-precedence to the 
>>> latest version, anyway; with the older one that was installed it crashed at 
>>> the end due to an otool error.)
>> 
>>> 
>> 
>>> --
>> 
>>> Martin
>> 
>> I changed the ./configure line in octave-3.8.2-11.info 
>>  (line 251) as that seemed the proper place 
>> and reran the the build, but I got the same error message as before.  I seem 
>> to be using the newest fink-package-prededence (11/10/16 for info file and 
>> 11/20/16 for the patch). I ran the build again with one build job, but got 
>> same error. Here is build script from last compile before error:
>> 
>>> libtool: compile:  oct-cxx -DHAVE_CONFIG_H -I. -I../.. -I../../libgnu 
>>> -I../../libgnu -I/sw/include -I/sw/include/freetype2 -O3 -MD -D_THREAD_SAFE 
>>> -pthread -MT Faddeeva/libcruft_la-Faddeeva.lo -MD -MP -MF 
>>> Faddeeva/.deps/libcruft_la-Faddeeva.Tpo -c Faddeeva/Faddeeva.cc 
>>>   -fno-common -DPIC -o 
>>> Faddeeva/.libs/libcruft_la-Faddeeva.o
>>> In file included from Faddeeva/Faddeeva.cc:159 :
>>> In file included from Faddeeva/Faddeeva.hh:30:
>>> In file included from 
>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/complex:247:
>>> In file included from 
>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/sstream:174:
>>> In file included from 
>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/ostream:140:
>>> In file included from 
>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/locale:192:
>>> In file included from 
>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cstdlib:86:
>>> ../../libgnu/stdlib.h:668:19: error: no member named 'mkostemp' in the 
>>> global namespace
>>> _GL_CXXALIAS_SYS (mkostemp, int, (char * /*template*/, int /*flags*/));
>>> ~~^~~~
>>> ../../libgnu/stdio.h:266:45: note: expanded from macro '_GL_CXXALIAS_SYS'
>>>   static rettype (*func) parameters = ::func;  \
>>>   ~~^
>>> 1 error generated.
>>> make[2]: *** [Faddeeva/libcruft_la-Faddeeva.lo] Error 1
>>> make[1]: *** [all-recursive] Error 1
>>> make: *** [all] Error 2
>>> ### execution of /tmp/fink.e0t0J failed, exit code 2
>>> ### execution of /tmp/fink.r32uz failed, exit code 2
>>> Removing runtime build-lock...
>>> Removing build-lock package...
>>> /sw/bin/dpkg-lockwait -r fink-buildlock-octave-3.8.2-11
>>> (Reading database ... 457004 files and directories currently installed.)
>>> Removing fink-buildlock-octave-3.8.2-11 ...
>>> Reading buildlock packages...
>>> /sw/bin/dpkg-lockwait -i 

Re: [Fink-users] Build of octave-3.8.2-11 failed

[Alexander Hansen]

> On Dec 2, 2016, at 21:02, Gary K. Olson <garykol...@mac.com> wrote:
> 
> I was compiling octave-3.8.2-11, and the build failed after not finding 
> member named 'mkostemp' in the global namespace. Not sure that missing member 
> is error but recursive errors did occur while compiling lapack-xtra/*.f 
> files. Here is build script of that portion:
> 
> In file included from /Applications//bin/sh ../../libtool  --tag=F77   
> --mode=compile /sw/bin/gfortran-fsf-5  -O3 -ff2c -c -o 
> lapack-xtra/libcruft_la-xslange.lo `test -f 'lapack-xtra/xslange.f' || echo 
> './'`lapack-xtra/xslange.f
> libtool: compile:  /sw/bin/gfortran-fsf-5 -O3 -ff2c -c lapack-xtra/xilaenv.f  
> -fno-common -o lapack-xtra/.libs/libcruft_la-xilaenv.o
> Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cstdlib:86:
> ../../libgnu/stdlib.h:668:19: error: no member named 'mkostemp' in the global 
> namespace
> _GL_CXXALIAS_SYS (mkostemp, int, (char * /*template*/, int /*flags*/));
> ~~^~~~
> ../../libgnu/stdio.h:266:45: note: expanded from macro '_GL_CXXALIAS_SYS'
>   static rettype (*func) parameters = ::func;  \
>   ~~^
> libtool: compile:  /sw/bin/gfortran-fsf-5 -O3 -ff2c -c lapack-xtra/xslamch.f  
> -fno-common -o lapack-xtra/.libs/libcruft_la-xslamch.o
> /bin/sh ../../libtool  --tag=F77   --mode=compile /sw/bin/gfortran-fsf-5  -O3 
> -ff2c -c -o lapack-xtra/libcruft_la-xzlange.lo `test -f 
> 'lapack-xtra/xzlange.f' || echo './'`lapack-xtra/xzlange.f
> /bin/sh ../../libtool  --tag=F77   --mode=compile /sw/bin/gfortran-fsf-5  -O3 
> -ff2c -c -o lapack-xtra/libcruft_la-zrsf2csf.lo `test -f 
> 'lapack-xtra/zrsf2csf.f' || echo './'`lapack-xtra/zrsf2csf.f
> 1 error generated.
> make[2]: *** [Faddeeva/libcruft_la-Faddeeva.lo] Error 1
> make[2]: *** Waiting for unfinished jobs
> libtool: compile:  /sw/bin/gfortran-fsf-5 -O3 -ff2c -c lapack-xtra/xslange.f  
> -fno-common -o lapack-xtra/.libs/libcruft_la-xslange.o
> libtool: compile:  /sw/bin/gfortran-fsf-5 -O3 -ff2c -c lapack-xtra/xzlange.f  
> -fno-common -o lapack-xtra/.libs/libcruft_la-xzlange.o
> libtool: compile:  /sw/bin/gfortran-fsf-5 -O3 -ff2c -c lapack-xtra/zrsf2csf.f 
>  -fno-common -o lapack-xtra/.libs/libcruft_la-zrsf2csf.o
> make[1]: *** [all-recursive] Error 1
> make: *** [all] Error 2
> ### execution of /tmp/fink.Kd447 failed, exit code 2
> ### execution of /tmp/fink.TR9Qp failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-octave-3.8.2-11
> (Reading database ... 457001 files and directories currently installed.)
> Removing fink-buildlock-octave-3.8.2-11 ...
> Reading buildlock packages...
> /sw/bin/dpkg-lockwait -i /sw/fink/debs/fort77_1.18-19_darwin-x86_64.deb
> Selecting previously deselected package fort77.
> (Reading database ... 457000 files and directories currently installed.)
> Unpacking fort77 (from .../fort77_1.18-19_darwin-x86_64.deb) ...
> Setting up fort77 (1.18-19) ...
> 
> Failed: phase compiling: octave-3.8.2-11 failed
> 
> My system info is:
> 
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Fri Dec  2 20:05:59 2016, 10.12, x86_64
> Trees: local/main stable/main local/injected
> Xcode.app: 8.1
> Xcode command-line tools: 8.1.0.0.1.1476494586
> Max. Fink build jobs:  4
> 
> Any help would be appreciated. Thank you.
> 
> Gary K Olson

Please try again, using a single build job, and post starting with the entire 
line of output just before the first error message.  Errors with multiple jobs 
are harder to track down.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] Failure to install plotutils-dev

[Alexander Hansen]

> On Dec 2, 2016, at 12:06, James Kolata <jkol...@nd.edu> wrote:
> 
> Here is the error message:
> 
>> Reading Package Lists...
>> Building Dependency Tree...
>> Some packages could not be installed. This may mean that you have
>> requested an impossible situation or if you are using the unstable
>> distribution that some required packages have not yet been created
>> or been moved out of Incoming.
>> 
>> Since you only requested a single operation it is extremely likely that
>> the package is simply not installable and a bug report against
>> that package should be filed.
>> The following information may help to resolve the situation:
>> 
>> Sorry, but the following packages have unmet dependencies:
>>   plotutils-dev: Depends: plotutils-shlibs (= 2.6-6) but 2.6-5 is to be 
>> installed
>> E: Sorry, broken packages
> 
> 
> This was on a binary install.  Here is the result of a standard install:
> 
>> Can't resolve dependency "system-xfree86-dev (>= 3:2.7.112-3)" for package
>> "plotutils-2.6-6" (no matching packages/versions found)
>> Exiting with failure.
> 
> I tried apt-get but that didn’t fix the problem.  
> 
> 
> [ESCs-MBP:~] jkolata1% fink --version
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Fri Dec  2 13:57:22 2016, 10.11, x86_64
> Trees: local/main stable/main local/injected
> 
> 
> System Version:   OS X 10.11.6 (15G1108)
>   Kernel Version: Darwin 15.6.0
>   Boot Volume:Macintosh HD
>   Boot Mode:  Normal
>   Computer Name:  ESC’s MacBook Pro
>   User Name:  jkolata1 (jkolata1)
>   Secure Virtual Memory:  Enabled
>   System Integrity Protection:Enabled
>   Time since boot:2:14
> 
> 

The system-xfree86 versioning requirement means that you need to install 
XQuartz-2.7.11 (or later).  This applies to either local builds or using the 
binary distribution.  

-- 
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Fink User Liaison


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Re: [Fink-users] vim source file not found

[Alexander Hansen]

> On Nov 22, 2016, at 05:39, Bill Waggoner <ctgreybe...@gmail.com> wrote:
> 
> Performing fink update-all failed because the vim source was not found ...
> 



Our mirrors will take a while to pick up newer sources, so that’s not too 
surprising.

> How do you want to proceed? [4] (assuming default)
> curl --connect-timeout 30 -f -L -A 'fink/0.41.1' -O 
> http://www.i8u.org/\~htodd/finksrc/vim-8.0.094.tar.bz2
>   % Total% Received % Xferd  Average Speed   TimeTime Time  
> Current
>  Dload  Upload   Total   SpentLeft  Speed
>   0 00 00 0  0  0 --:--:-- --:--:-- --:--:-- 0
> curl: (22) The requested URL returned error: 404 Not Found
> ### execution of curl failed, exit code 22
> Downloading the file "vim-8.0.094.tar.bz2" failed.
> 
> (1)   Give up
> (2)   Retry the same mirror
> 
> How do you want to proceed? [2] (assuming default)
> -- 
> Bill W
> ———

However, the source above worked for me just now:

curl --connect-timeout 30 -f -L -A 'fink/0.41.1' -O 
http://www.i8u.org/\~htodd/finksrc/vim-8.0.094.tar.bz2
  % Total% Received % Xferd  Average Speed   TimeTime Time  Current
 Dload  Upload   Total   SpentLeft  Speed
100  9.8M  100  9.8M0 0   203k  0  0:00:49  0:00:49 --:--:--  263k

-- 
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Re: [Fink-users] Can't resolve dependency "system-xfree86-dev (>= 3:2.7.112-3)"

[Alexander Hansen]

> On Nov 22, 2016, at 06:07, Ralph Gebauer <rgeba...@ictp.it> wrote:
> 
> Dear all,
> 
> I am running Fink 0.41.1 on OSX 10.11.6.
> 
> I tried today to update my fink packages, but without success (see below).
> 
> Thanks a lot for any help!
> 
> Ralph
> 
> 
> 
> fink update-all
> Information about 9934 packages read in 1 seconds.
> Can't resolve dependency "system-xfree86-dev (>= 3:2.7.112-3)" for 
> package "libxaw3dxft-1.6.2-7" (no matching
> packages/versions found)
> Exiting with failure.

Update Xquartz to version 2.7.11 (or reinstall it to restore the package 
receipt).  We introduced this dependency to resolve issues with the libXt 
library.
-- 
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Fink User Liaison


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Re: [Fink-users] texinfo missing dependencies?

[Alexander Hansen]

>>> 
>>> That’s odd.  The missing .pm file appears to be provided by 
>>> locale-textdomain-pm5182, which is an explicit dependency of texinfo.  
>>> Check whether you do in fact have /sw/lib/perl5/5.18.2/Locale/Messages.pm.  
>>>  If not, then try “fink reinstall locale-textdomain-pm5812"
>> 
>> The issue is the same as my earlier message [1] on texinfo and 
>> text-unidecode-pm.  Both text-unicode-pm and locale-textdomain-pm5182 are 
>> listed as RuntimeDepends but apparently are also needed at buildtime and so 
>> should be just Depends:.
>> 
>> [1] https://sourceforge.net/p/fink/mailman/message/35502697/ 
>> <https://sourceforge.net/p/fink/mailman/message/35502697/>
>> 
>> Hanspeter
> 
> Aha, I wasn’t able to remove locale-textdomain-pm5182 because texinfo was 
> already installed.
> 
> 
> -- 
> Alexander Hansen, Ph.D.
> Fink User Liaison
> 

I just updated texinfo accordingly.  No rev-up since it won’t change the listed 
.deb dependencies.

-- 
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Fink User Liaison

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Re: [Fink-users] texinfo missing dependencies?

[Alexander Hansen]

> On Nov 20, 2016, at 14:03, Hanspeter Niederstrasser <f...@snaggledworks.com> 
> wrote:
> 
> On 11/20/16 3:55 PM, Alexander Hansen wrote:
>> 
>>> On Nov 20, 2016, at 08:33, Bill Waggoner <ctgreybe...@gmail.com> wrote:
>>> 
>>> Error updating during self-update ...
>>> 
>>> 
>> 
>> 
>> 
>>> Can't locate Locale/Messages.pm in @INC (you may need to install the 
>>> Locale::Messages module) (@INC contains: ../tp/Texinfo/Convert/XSParagraph 
>>> ../tp/maintain/lib/Unicode-EastAsianWidth/lib ../tp/maintain ../tp ../tp 
>>> ../tp /sw/lib/perl5 /sw/lib/perl5/darwin 
>>> /Library/Perl/5.18/darwin-thread-multi-2level /Library/Perl/5.18 
>>> /Network/Library/Perl/5.18/darwin-thread-multi-2level 
>>> /Network/Library/Perl/5.18 /Library/Perl/Updates/5.18.2 
>>> /System/Library/Perl/5.18/darwin-thread-multi-2level 
>>> /System/Library/Perl/5.18 
>>> /System/Library/Perl/Extras/5.18/darwin-thread-multi-2level 
>>> /System/Library/Perl/Extras/5.18 .) at ../tp/texi2any line 109.
>>> BEGIN failed--compilation aborted at ../tp/texi2any line 109.
>>> make: *** [info-stnd.info] Error 2
>>> ### execution of /tmp/fink.ehTzm failed, exit code 2
>>> ### execution of /tmp/fink.ISGJ7 failed, exit code 2
>>> Removing runtime build-lock...
>>> Removing build-lock package...
>>> /sw/bin/dpkg-lockwait -r fink-buildlock-texinfo-6.3-207
>>> (Reading database ... 15302 files and directories currently installed.)
>>> Removing fink-buildlock-texinfo-6.3-207 ...
>>> Failed: phase compiling: texinfo-6.3-207 failed
>>> 
>>> Before reporting any errors, please run "fink selfupdate" and try again.
>>> Also try using "fink configure" to set your maximum build jobs to 1 and
>>> attempt to build the package again.
>>> If you continue to have issues, please check to see if the FAQ on Fink's
>>> website solves the problem.  If not, ask on one (not both, please) of
>>> these mailing lists:
>>> 
>>> The Fink Users List <fink-users@lists.sourceforge.net>
>>> The Fink Beginners List <fink-beginn...@lists.sourceforge.net>.
>>> 
>>> Please try to include the complete error message in your report.  This
>>> generally consists of a compiler line starting with e.g. "gcc" or "g++"
>>> followed by the actual error output from the compiler.
>>> 
>>> Also include the following system information:
>>> Package manager version: 0.41.1
>>> Distribution version: selfupdate-rsync Sun Nov 20 11:21:52 2016, 10.12, 
>>> x86_64
>>> Trees: local/main stable/main
>>> Xcode.app: 8.1
>>> Xcode command-line tools: 8.1.0.0.1.1476494586
>>> Max. Fink build jobs:  8
>>> 
>>> 
>>> --
>>> Bill W
>> 
>> That’s odd.  The missing .pm file appears to be provided by 
>> locale-textdomain-pm5182, which is an explicit dependency of texinfo.  Check 
>> whether you do in fact have /sw/lib/perl5/5.18.2/Locale/Messages.pm.   If 
>> not, then try “fink reinstall locale-textdomain-pm5812"
> 
> The issue is the same as my earlier message [1] on texinfo and 
> text-unidecode-pm.  Both text-unicode-pm and locale-textdomain-pm5182 are 
> listed as RuntimeDepends but apparently are also needed at buildtime and so 
> should be just Depends:.
> 
> [1] https://sourceforge.net/p/fink/mailman/message/35502697/ 
> <https://sourceforge.net/p/fink/mailman/message/35502697/>
> 
> Hanspeter

Aha, I wasn’t able to remove locale-textdomain-pm5182 because texinfo was 
already installed.


-- 
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Fink User Liaison

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Re: [Fink-users] texinfo missing dependencies?

[Alexander Hansen]

> On Nov 20, 2016, at 08:33, Bill Waggoner <ctgreybe...@gmail.com> wrote:
> 
> Error updating during self-update ...
> 
> 



> Can't locate Locale/Messages.pm in @INC (you may need to install the 
> Locale::Messages module) (@INC contains: ../tp/Texinfo/Convert/XSParagraph 
> ../tp/maintain/lib/Unicode-EastAsianWidth/lib ../tp/maintain ../tp ../tp 
> ../tp /sw/lib/perl5 /sw/lib/perl5/darwin 
> /Library/Perl/5.18/darwin-thread-multi-2level /Library/Perl/5.18 
> /Network/Library/Perl/5.18/darwin-thread-multi-2level 
> /Network/Library/Perl/5.18 /Library/Perl/Updates/5.18.2 
> /System/Library/Perl/5.18/darwin-thread-multi-2level 
> /System/Library/Perl/5.18 
> /System/Library/Perl/Extras/5.18/darwin-thread-multi-2level 
> /System/Library/Perl/Extras/5.18 .) at ../tp/texi2any line 109.
> BEGIN failed--compilation aborted at ../tp/texi2any line 109.
> make: *** [info-stnd.info] Error 2
> ### execution of /tmp/fink.ehTzm failed, exit code 2
> ### execution of /tmp/fink.ISGJ7 failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-texinfo-6.3-207
> (Reading database ... 15302 files and directories currently installed.)
> Removing fink-buildlock-texinfo-6.3-207 ...
> Failed: phase compiling: texinfo-6.3-207 failed
> 
> Before reporting any errors, please run "fink selfupdate" and try again.
> Also try using "fink configure" to set your maximum build jobs to 1 and
> attempt to build the package again.
> If you continue to have issues, please check to see if the FAQ on Fink's
> website solves the problem.  If not, ask on one (not both, please) of
> these mailing lists:
> 
>   The Fink Users List <fink-users@lists.sourceforge.net>
>   The Fink Beginners List <fink-beginn...@lists.sourceforge.net>.
> 
> Please try to include the complete error message in your report.  This
> generally consists of a compiler line starting with e.g. "gcc" or "g++"
> followed by the actual error output from the compiler.
> 
> Also include the following system information:
> Package manager version: 0.41.1
> Distribution version: selfupdate-rsync Sun Nov 20 11:21:52 2016, 10.12, x86_64
> Trees: local/main stable/main
> Xcode.app: 8.1
> Xcode command-line tools: 8.1.0.0.1.1476494586
> Max. Fink build jobs:  8
> 
> 
> -- 
> Bill W

That’s odd.  The missing .pm file appears to be provided by 
locale-textdomain-pm5182, which is an explicit dependency of texinfo.  Check 
whether you do in fact have /sw/lib/perl5/5.18.2/Locale/Messages.pm.   If not, 
then try “fink reinstall locale-textdomain-pm5812"

-- 
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Fink User Liaison


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Re: [Fink-users] Failed: phase compiling: blt-2.4z-162 failed

[Alexander Hansen]

> On Nov 14, 2016, at 08:31, William G. Scott <wgsc...@ucsc.edu> wrote:
> 
> BTW, BLT still compiles fine on my 10.11.6 machine at work.  I haven’t had a 
> chance to test on anything with 10.12 and my home internet has been down 
> since the orange coup.
> 
> William G. Scott
> Director, Program in Biochemistry and Molecular Biology
> Professor, Department of Chemistry and Biochemistry
> and The Center for the Molecular Biology of RNA
> University of California at Santa Cruz
> Santa Cruz, California 95064
> USA
> 
> http://scottlab.ucsc.edu

I got the same error on 10.12:

gcc -Wall -O3 -fno-common -Wall -fno-strict-aliasing 
-I/sw/include/tcltk-private/tk8.6/generic 
-I/sw/include/tcltk-private/tk8.6/unix   -I. -I.  -I/sw/include 
-I/usr/X11/include  -o bltwish \
-DTCLLIBPATH=\"/sw/lib/tcl8.6\" \
./bltUnixMain.c libBLT.a -L/sw/lib -ltk8.6 -ltcl8.6 -lX11 
-ljpeg -lm   
ld: library not found for -lX11

Even though I’m fully provisioned with convenience symlinks:

Fionna-4:finkinfo hansen$ ls -l /usr
total 16
lrwxr-xr-x 1 root  wheel  8 Nov  1 08:28 X11 -> /opt/X11
lrwxr-xr-x 1 root  wheel  8 Nov  1 08:28 X11R6 -> /opt/X11

During the configure phase I show:  

checking for X... libraries , headers /usr/X11/include

and config.log has 

configure:2964: gcc -E -I/sw/include conftest.c >/dev/null 2>conftest.out
In file included from configure:2960:
/sw/include/X11/Intrinsic.h:53:10: fatal error: 'X11/Xlib.h' file not found
#include
^
1 error generated.

It turns out that Fink’s libxt package was the culprit here for me.  By 
removing that the build was able to proceed.  We’re going to be phasing libXt 
(non-flat) out since it didn’t behave as we had hoped, but currently either 
libxt or libxt-flat will trigger this.


-- 
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Fink User Liaison


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Re: [Fink-users] Failed: phase compiling: blt-2.4z-162 failed

[Alexander Hansen]

> On Nov 14, 2016, at 07:45, Yu, Ying  wrote:
> 
> Hi Alex,
> 
> Thanks for the reply. If I type "ls -d /usr" in the terminal, I got "/usr". 
> Then how to go on from here?
> 
> Ying

Oops,  I should have just had you use “ls -l /usr”.  I wasn’t fully awake, I 
guess. ;-)--
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Re: [Fink-users] Failed: phase compiling: blt-2.4z-162 failed

[Alexander Hansen]

> On Nov 14, 2016, at 06:35, Yu, Ying <yu.1...@buckeyemail.osu.edu> wrote:
> 
> Hi all,
> 
> I run into the errors, "clang: error: linker command failed with exit code 1 
> " and "Failed: phase compiling: blt-2.4z-162 failed",  when I run "fink 
> install kdebase4-mac". I think I have the appropriate Xcode and command line 
> tool version. I don't know how to fix this problem and get KDE installed. Can 
> anybody help me? A detailed report can be seen below.
> 
> Thanks,
> 
> Ying
> 
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib:
>  file: libBLT.a(bltVecCmd.o) has no symbols
> ranlib libBLT.a
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/ranlib:
>  file: libBLT.a(bltVecCmd.o) has no symbols
> rm -f bltwish
> gcc -Wall -O3 -fno-common -Wall -fno-strict-aliasing 
> -I/sw/include/tcltk-private/tk8.6/generic 
> -I/sw/include/tcltk-private/tk8.6/unix   -I. -I.  -I/sw/include 
> -I/usr/X11/include  -o bltwish \
> -DTCLLIBPATH=\"/sw/lib/tcl8.6\" \
> ./bltUnixMain.c libBLT.a -L/sw/lib -ltk8.6 -ltcl8.6 -lX11 -ljpeg -lm   
> ld: library not found for -lX11
> clang: error: linker command failed with exit code 1 (use -v to see 
> invocation)
> make[1]: *** [bltwish] Error 1
> make: *** [all] Error 2
> ### execution of /tmp/fink.bDGCX failed, exit code 2
> ### execution of /tmp/fink.69mJ_ failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-blt-2.4z-162
> (Reading database ... 171043 files and directories currently installed.)
> Removing fink-buildlock-blt-2.4z-162 ...
> Failed: phase compiling: blt-2.4z-162 failed
> 
> Before reporting any errors, please run "fink selfupdate" and try again.
> 
> If you continue to have issues, please check to see if the FAQ on Fink's 
> website solves the problem.  If not, ask on one (not both, please) of
> these mailing lists:
> 
> The Fink Users List <fink-users@lists.sourceforge.net>
> The Fink Beginners List <fink-beginn...@lists.sourceforge.net>,
> 
> with a carbon copy to the maintainer:
> 
> William Scott <wgsc...@users.sourceforge.net>
> 
> Note that this is preferable to emailing just the maintainer directly,
> since most fink package maintainers do not have access to all possible
> hardware and software configurations.
> 
> Please try to include the complete error message in your report.  This
> generally consists of a compiler line starting with e.g. "gcc" or "g++"
> followed by the actual error output from the compiler.
> 
> Also include the following system information:
> Package manager version: 0.41.0
> Distribution version: selfupdate-rsync Fri Nov 11 12:00:29 2016, 10.10, x86_64
> Trees: local/main stable/main
> Xcode.app: 6.4
> Xcode command-line tools: 7.2.0.0.1.1447826929
> blt-2.4z-162 is set to build with only one job.
> 
> —

Actually, the error is "ld: library not found for -lX11”.  The other items are 
symptoms of that.

What do you get from “ls -d /usr” ?  We’re trying to have our packages not 
assume the existence of the /usr/X11 and /usr/X11R6 convenience symlinks, but 
blt might not have been updated to do that yet.

-- 
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Fink User Liaison


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Re: [Fink-users] fink install xfig failed

[Alexander Hansen]

> On Nov 12, 2016, at 05:04, Roman Fleysher <rfleys...@yahoo.com> wrote:
> 
> Thank you, Alexander. I installed libxt and xfig started to work. 
> 
> 
> However, xfig behaves strange. When I try to edit an object, I can change 
> values only by pressing "up" and "down" triangles next to the value to 
> increment or decrement it. But if I try to edit text field --- no. What I 
> did, I opened xfig file in a text editor and edited the entry there.
> 
> Is it interaction with Xquartz which I recently updated?
> 
> Roman
> 
> 

I’m honestly not sure.  I’ve seen problems with the text fields, too.  Google 
isn’t being helpful.

The best workaround that I know about right now is to enter your text in a 
different application window, copy it, and paste it into xfig, since pasting 
works. 

Hopefully we can get this figured out soon.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] fink build error libopenjp

[Alexander Hansen]

> On Nov 12, 2016, at 16:11, Eduard Karel de Jong <edu...@dejongfrz.nl> wrote:
> 
> Oeps. I forgot the system info
> 
> I'm trying to build fink's libopenjp on Macos 10.9.5 on a late 2013 MacBook 
> pro with a 2,3 GHz Intel Core i7
> 
> Speedy-Pro-4:~ edkj$ fink install libopenjp2.7
> Password:
> Information about 10225 packages read in 0 seconds.
> 
> WARNING: Xcode.app version (6.1) and Xcode Command Line Tools version (6.2)
> may not be compatible.
> You may experience build errors.
> 
> The build proceeds smoothly until this compile step:
> 
> [ 86%] Building C object 
> src/bin/jp2/CMakeFiles/opj_decompress.dir/converttif.c.o
> cd /sw/src/fink.build/libopenjp2.7-shlibs-2.1.1-1/openjpeg-2.1.1/src/bin/jp2 
> && /sw/var/lib/fink/path-prefix-clang/cc   
> -I/sw/src/fink.build/libopenjp2.7-shlibs-2.1.1-1/openjpeg-2.1.1/src/lib/openjp2
>  
> -I/sw/src/fink.build/libopenjp2.7-shlibs-2.1.1-1/openjpeg-2.1.1/src/bin/common
>  -I/sw/include -I/include  -MD -O3 -DNDEBUG -isysroot 
> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk
>  -mmacosx-version-min=10.9   -o CMakeFiles/opj_decompress.dir/converttif.c.o  
>  -c 
> /sw/src/fink.build/libopenjp2.7-shlibs-2.1.1-1/openjpeg-2.1.1/src/bin/jp2/converttif.c
> ld: warning: ignoring file /lib/libpng.dylib, file was built for i386 which 
> is not the architecture being linked (x86_64): /lib/libpng.dylib
> ld: warning: ignoring file /lib/libtiff.dylib, file was built for i386 which 
> is not the architecture being linked (x86_64): /lib/libtiff.dylib
> ld: warning: ignoring file /lib/libtiff.dylib, file was built for i386 which 
> is not the architecture being linked (x86_64): /lib/libtiff.dylib
> 
> Followed by a list of not found symbols in the ld step that follows. Which is 
> not really surprising with the above warning.
> 
> Undefined symbols for architecture x86_64:
>   "_TIFFClose", referenced from:
> 
> 
> This is repeated for a couple of other source files that link to one or more 
> of these files.
> 
> And the build ends in error.
> 
> This happens after an update all.
> 
> The offending library files are symbolic links:
> 
> ls -l /lib/libpng.dylib /lib/libtiff.dylib
> lrwxr-xr-x  1 root  wheel  14  3 jul  2010 /lib/libpng.dylib -> libpng12.dylib
> lrwxr-xr-x  1 root  wheel  15  3 jul  2010 /lib/libtiff.dylib -> 
> libtiff.3.dylib
> file /lib/libpng12.dylib /lib/libtiff.3.dylib
> /lib/libpng12.dylib:  Mach-O dynamically linked shared library i386
> /lib/libtiff.3.dylib: Mach-O dynamically linked shared library i386
> 
> all files in /lib are for the i386 architecture, except 19 files which are 
> broken links to a old fink directory (sw2) that i had on a previous laptop. 
> 
> All other builds in fink work fine. They seem not to need /lib.
> 
> How do i get past this hurdle?
> 
> System info:
> Package manager version: 0.41.0
> Distribution version: selfupdate-rsync Sat Nov 12 10:28:47 2016, 10.9, x86_64
> Trees: local/main stable/main
> Xcode.app: 6.1.1
> Xcode command-line tools: 6.2.0.0.1.1424975374
> Max. Fink build jobs:  8
> 
> Thanks
> Eduard de Jong
> 

Your “all other builds” probably aren’t trying to bring in the libraries that 
you have in /lib.  

I’d recommend temporarily renaming /lib or getting rid of those libraries 
altogether unless you actulally need them for something.


-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] fink install fails

[Alexander Hansen]

> On Nov 11, 2016, at 21:58, Ravindra Amritkar <ravin...@gmail.com> wrote:
> 
> Dear
> 
> I installed fink on clean Sierra upgrade. After installing I tried to install 
> xfig. Installation failed. I tried again by reinstalling fink. But same error 
> again. I also tried the suggested procedure of putting Fink build jobs to 1. 
> But failed again. (I have used fink earlier without any problem.)
> 
> Error message: (Part of the output as follows)
> 
> Found use of headers from 6 fink packages:
>   fontconfig2-dev
>   freetype219
>   libjpeg9
>   libpng16
>   libxaw3dxft
>   xft2-dev
> Scanning binaries for incorrect dyld linking...
>./src/xfig uses /opt/X11/lib/libXt.6.dylib
> Please fix build process to get consistent use of fink's libraries.
> ### execution of fink-package-precedence failed, exit code 255
> ### execution of /tmp/fink.qSR8k failed, exit code 255
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-xfig-3.2.6-1
> (Reading database ... 6341 files and directories currently installed.)
> Removing fink-buildlock-xfig-3.2.6-1 ...
> Failed: phase compiling: xfig-3.2.6-1 failed
> 
> System information
> 
> Package manager version: 0.41.0
> Distribution version: selfupdate-rsync Sat Nov 12 11:06:38 2016, 10.12, x86_64
> Trees: local/main stable/main
> Xcode.app: 8.1
> Xcode command-line tools: 8.1.0.0.1.1476494586
> Max. Fink build jobs:  4
> 
> 
> best regards
> Ravindra Amritkar
> 
> -- 
> Ravindra E Amritkar
> Institute of Infrastructure, Technology, Research and Management,
> Khokhara Circle, Maninagar (east)
> Ahmedabad 380026, India
> Phone +91 9016626694
> ravin...@gmail.com <mailto:ravin...@gmail.com>, ravindraamrit...@iitram.ac.in 
> <mailto:ravindraamrit...@iitram.ac.in>
> ———

We’re in the process of trying to fix some issues here.  For now, download 

https://raw.githubusercontent.com/akhansen/Fink-experimental/master/libXt/xfig.info
 
<https://raw.githubusercontent.com/akhansen/Fink-experimental/master/libXt/xfig.info>

and copy or move that into /sw/fink/dists/local/main/finkinfo

There is another (not obviously related) problem that we are currently 
experiencing with xfig, which is that the text entry fields aren’t responding 
to keystrokes.  Copying and pasting text from another window works, however.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

--
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Re: [Fink-users] emacs stops working after update-all

[Alexander Hansen]

> On Nov 10, 2016, at 12:15, <james.gunn...@csiro.au> <james.gunn...@csiro.au> 
> wrote:
> 
> All,
> Identical issue with plotutils  (graph -TX) too.
> A rebuild of that package didn't help. Is this the flat-namespace issue
> with the X libraries from recent Xquartzen?
> Any suggestions appreciated.
> Thanks
>   James.
> 
> James Gunning
> CSIRO 
> Clayton, Vic., Australia
> 
> From: Andrea Cavalli <andrea.cava...@irb.usi.ch>
> Sent: Thursday, 10 November 2016 10:42 PM
> To: fink-users@lists.sourceforge.net >> fink-users mailing list
> Subject: [Fink-users] emacs stops working after update-all
> 
> After fink update-all (done because xmgrace was not working anymore), xmgrace 
> fails with error:
> 
> Error: Couldn't find per display information
> 
> Fink 0.41.0
> Mac OS 10.11.6
> XQuartz 2.7.11 (xorg-server 1.18.4)
> 
> Thanks
> Andrea
> 
> ---
> Dr. Andrea Cavalli
> Institute for Research in Biomedicine
> Via Vincenzo Vela 6
> CH-6500 Bellinzona
> 
> Email:   andrea.cava...@irb.usi.ch
> 
> Phone:  +41 (0)91  820 0303
> 
> http://www.open-almost.org
> 



The two issues  are kind of related to that:  we rolled our own 
non-flat-namespace libXt for libxaw3dxft-using packages to avoid forcing people 
to update Xquartz, since libXt switched from flat to two level namespace along 
the way, and we wanted non-Motif packages all to use the two level version.   
Unfortunately, other X11 libraries link to libXt and apparently don’t like 
mixing Fink’s and XQuartz’s versions of that library.

I’m in the process of putting up some interim test package builds to try out.  
These have a decimal revision, so that they will replace your currently 
installed packages, and will in turn be replaced by the official solutions.  To 
use them:

1) Update XQuartz to 2.7.10 or later.  Currently fink doesn’t have an obvious 
way to track that, but the next release should.
2) Download the relevant .info and .patch files from 
https://github.com/akhansen/Fink-experimental/tree/master/libXt 
<https://github.com/akhansen/Fink-experimental/tree/master/libXt> to 
/sw/fink/dists/local/main/finkinfo.  You will need the items for libxaw3dxft 
and whatever other package you’re interested in.
3)  Update libxaw3dft(-shlibs) first, and then install your other package(s).  

This isn’t an exhaustive list, because I can’t spend too much time not doing my 
paid job.  I’ll add packages as time permits.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] fink install xfig failed

[Alexander Hansen]

> On Nov 7, 2016, at 13:58, Roman Fleysher <rfleys...@yahoo.com> wrote:
> 
> Dear Fink'ers,
> 
> After performing  
> 
> fink update-all
> 
> xfig disappeared. I try to install it using 
> 
> fink install xfig
> 
> and get error (towards the end):
> 
> Looking for incorrect headers in 123 dependency files...
> Determining fink providers of 57 headers...
> 1 - 57
> Found use of headers from 6 fink packages:
> fontconfig2-dev
> freetype219
> libjpeg9
> libpng16
> libxaw3dxft
> xft2-dev
> Scanning binaries for incorrect dyld linking...
> ./src/xfig uses /opt/X11/lib/libXt.6.dylib
> Please fix build process to get consistent use of fink's libraries.
> ### execution of fink-package-precedence failed, exit code 255
> ### execution of /tmp/fink.Mhxf4 failed, exit code 255
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-xfig-3.2.6-1
> (Reading database ... 181295 files and directories currently installed.)
> Removing fink-buildlock-xfig-3.2.6-1 ...
> Failed: phase compiling: xfig-3.2.6-1 failed
> 
> Before reporting any errors, please run "fink selfupdate" and try again.
> 
> If you continue to have issues, please check to see if the FAQ on Fink's 
> website solves the problem.  If not, ask on one (not both, please) of
> these mailing lists:
> 
> The Fink Users List <fink-users@lists.sourceforge.net>
> The Fink Beginners List <fink-beginn...@lists.sourceforge.net>.
> 
> Please try to include the complete error message in your report.  This
> generally consists of a compiler line starting with e.g. "gcc" or "g++"
> followed by the actual error output from the compiler.
> 
> Also include the following system information:
> Package manager version: 0.41.0
> Distribution version: selfupdate-rsync Mon Nov  7 16:23:50 2016, 10.10, x86_64
> Trees: local/main stable/main stable/crypto
> Xcode.app: 7.1.1
> Xcode command-line tools: 7.2.0.0.1.1447826929
> Max. Fink build jobs:  1
> 
> 
> Thank you,
> 
> Roman
> 

install libxt.  It’s currently a requirement, but we may well change that soon.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Compile fails for libgraphviz238-shlibs.0-6

[Alexander Hansen]

> On Nov 8, 2016, at 09:23, C. R. Ramakrishnan <c.r.ramakrish...@gmail.com> 
> wrote:
> 
> Thanks for the quick follow up!
> "which sed" gives /usr/bin/sed
> 
> Thanks,
> CR
> 

Try installing fink’s sed (“fink install sed”).  It has slightly different 
options.




-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Compile fails for libgraphviz238-shlibs.0-6

[Alexander Hansen]

> On Nov 8, 2016, at 08:31, C. R. Ramakrishnan <c.r.ramakrish...@gmail.com> 
> wrote:
> 
> Compilation fails when installing graphviz, specifically 
> libgraphviz238-shlibs
> 
> My configuration is:
> OSX 10.10.5, fink 0.41.0
> Distribution version: selfupdate-rsync Tue Nov  8 10:56:09 2016, 10.10, 
> x86_64
> Trees: local/main stable/main
> XCode: 7.2.1
> 
> 
> The error message is:
> 
> swig -c++ -ocaml -o gv_ocaml.cpp ./gv.i
> mv gv_ocaml.cpp gv_ocaml.cpp.orig
> sed '/int caml_array_length/d' gv_ocaml.cpp.orig | sed '/stdlib/a#define 
> int64 int64_t' > gv_ocaml.cpp
> sed: 1: "/stdlib/a#define int64  ...": command a expects \ followed by text
> make[4]: *** [gv_ocaml.cpp] Error 1
> make[3]: *** [all-recursive] Error 1
> make[2]: *** [all-recursive] Error 1
> make[1]: *** [all-recursive] Error 1
> make: *** [all] Error 2
> ...
> Failed: phase compiling: libgraphviz238-shlibs-2.38.0-6 failed
> 
> Please let me know if I did not include any relevant error message, and 
> I'll send the whole output.
> 
> Thanks,
> CRRamakrishnan

What do you get from “which sed” ?


-- 
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Fink User Liaison


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Re: [Fink-users] build of ccfits fails

[Alexander Hansen]

rsive] Error 1
> make: *** [all] Error 2
> ### execution of /tmp/fink.BjjH1 failed, exit code 2
> ### execution of /tmp/fink.UaWUW failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-ccfits-2.4-2
> (Reading database ... 4591 files and directories currently installed.)
> Removing fink-buildlock-ccfits-2.4-2 ...
> Failed: phase compiling: ccfits-2.4-2 failed
> 
> ...
> 
> Package manager version: 0.41.0
> Distribution version: selfupdate-rsync Sun Nov  6 21:25:27 2016, 10.12, x86_64
> Trees: local/main stable/main
> Xcode.app: 8.1
> Xcode command-line tools: 8.1.0.0.1.1476494586
> Max. Fink build jobs:  1

(Please don’t crosspost.  It just scatters the message thread all over the 
place, and that’s why we specifically ask folks not to do that in the 
post-error text.)

The error may be due to clang being more strict in Xcode 8 than when the 
package was last updated.  There’s a newer version on the upstream developer’s 
website, so we might want to look into that.

-- 
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Fink User Liaison


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Re: [Fink-users] xfig installation issue

[Alexander Hansen]

> On Nov 3, 2016, at 09:10, Erhun Kundakcioglu <erh...@gmail.com> wrote:
> 
> I'm having the following message when I try "fink install xfig" or "sudo fink 
> install xfig". I will appreciate any help regarding this.



> --
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1) Don’t use image screenshots on this list.  Fink is a command-line tool, so 
copy and paste TEXT from the terminal.  This isn’t an iPhone app list.

2)  You removed all of the useful info in any case.  All of the information 
that you gave us is that fink-package precedence fails, which could be for 
various reasons.  Try PASTING TEXT from earlier in your build.

-- 
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Fink User Liaison


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Re: [Fink-users] problem building ocrad in fink

[Alexander Hansen]

> On Oct 31, 2016, at 09:53, Robert Wohlhueter <bobwohlhue...@earthlink.net> 
> wrote:
> 
> Running fink under MacOS 10.11.6 (El Capitan), I get the error messages 
> copied below (just what I take to be the relevant part of the full "fink 
> install ocrad" output).  This error persists after a successful "fink 
> self-update", "fink update-all", and whether fink configuration is set to 1 
> or 2 simultaneous builds (mine is a 2-core cpu).
> 
> I have no clue as towhat the "std::abs" problem is, Does anyone?
> 
> Thanks,
> 
> Bob Wohlhueter
> 
> **
> 
> OK. Now you can run make.
> /usr/bin/make
> g++  -Wall -W -O2 -c -o common.o common.cc
> g++  -Wall -W -O2 -c -o mask.o mask.cc
> g++  -Wall -W -O2 -c -o rational.o rational.cc
> g++  -Wall -W -O2 -c -o rectangle.o rectangle.cc
> g++  -Wall -W -O2 -c -o track.o track.cc
> 
> g++  -Wall -W -O2 -c -o ucs.o ucs.cc
> g++  -Wall -W -O2 -c -o page_image.o page_image.cc
> track.cc:46:21: error: no member named 'abs' in namespace 'std'
>   10 * std::abs( r1.bottom() - r2.bottom() ) <= mean_height )
>~^
> track.cc:48:32: error: no member named 'abs' in namespace 'std'
>   if( val > 1 && 10 * std::abs( r1.vcenter() - r2.vcenter() ) <= 
> mean_height )
>   ~^
> track.cc:51:30: error: no member named 'abs' in namespace 'std'
> if( val > 2 && 10 * std::abs( r1.vcenter() - r2.vcenter() ) <= 
> mean_height )
> ~^
> 3 errors generated.
> make: *** [track.o] Error 1
> make: *** Waiting for unfinished jobs
> ### execution of /usr/bin/make failed, exit code 2
> ### execution of /tmp/fink.vEKPq failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-ocrad-0.21-1
> (Reading database ... 299251 files and directories currently installed.)
> Removing fink-buildlock-ocrad-0.21-1 ...
> Failed: phase compiling: ocrad-0.21-1 failed

As an additional bit of information: what command-line tools version are you on 
('fink list -t xcode’ is an easy way to get that)?

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] xmgrace problems with XQuartz 2.7.10

[Alexander Hansen]

> On Oct 24, 2016, at 07:49, Alexander Hansen <alexanderk.han...@gmail.com> 
> wrote:
> 
> 
>> On Oct 24, 2016, at 05:09, Ralph Gebauer <rgeba...@ictp.it> wrote:
>> 
>> Dear fink community,
>> 
>> today, I updated my XQuartz installation on OSX 10.11.6 to XQuartz 2.7.10.
>> 
>> Since this upgrade, I cannot start xmgrace any more, while other X11 
>> application (xterm, etc.) still function ok.
>> 
>> The error message I get is:
>> 
>>> xmgrace
>>> Warning: Widget must be a VendorShell.
>>> Warning: Fatal Error:
>>> _XmGetDefaultDisplay cannot be used prior to VendorS.Initialize, returns 
>>> NULL
>>> 
>>> Oops! Got SIGSYS
>>> 
>>> Please use "Help/Comments" to report the bug.
>>> Abort trap: 6
>> 
>> 
>> Thanks for any help!
>> 
>> Ralph Gebauer
> 
> The Xquartz developers decided to break backwards compatibility on one of the 
> X11 libraries (libXt).  We’re working on this.
> 
> -- 
> Alexander Hansen, Ph.D.
> Fink User Liaison
> 

grace-5.1.25-4 should solve the problem.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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[Fink-users] ExtUtils-CBuilder-0.2703.tar.gz no longer available upstream, was Re: xcode update

[Alexander Hansen]

> On Oct 28, 2016, at 08:02, Daren Gillespie <dgilles...@leg.ne.gov> wrote:
> 
> Just updated to Xcode 8.1 and now I'm getting errors during fink update-all.
> 
> curl --connect-timeout 30 -f -L -A 'fink/0.41.0' -O 
> ftp://ftp.cpan.org/pub/CPAN/authors/id/D/DA/DAGOLDEN/ExtUtils-CBuilder-0.2703.tar.gz
> 
>   % Total% Received % Xferd  Average Speed   TimeTime Time  
> Current
> 
>  Dload  Upload   Total   SpentLeft  Speed
> 
>   0 00 00 0  0  0 --:--:--  0:00:01 --:--:-- 0
> 
> curl: (78) RETR response: 550
> 
> ### execution of curl failed, exit code 78
> 
> Downloading the file "ExtUtils-CBuilder-0.2703.tar.gz" failed.
> 
> 
> I don't see that version of ExtUtils on the mirrors.
> 
> Thanks.
> 
> -- 
> Daren Gillespie
> Senior Network Administrator
> NE State Legislature
> 402-471-2553

That has absolutely nothing to do with Xcode, which has only to do with 
programs, libraries, and headers used to build packages.  

We specify URLs for sources, and upstream sites sometimes (re)move them.  This 
particular source archive is no longer available via the original URL, but I 
can fetch it from one of our master mirrors:

$ fink fetch extutils-cbuilder-pm
Information about 9929 packages read in 0 seconds.
curl --connect-timeout 30 -f -L -A 'fink/0.41.0.git' -O 
http://distfiles.master.finkmirrors.net/distfiles/ExtUtils-CBuilder-0.2703.tar.gz
  % Total% Received % Xferd  Average Speed   TimeTime Time  Current
 Dload  Upload   Total   SpentLeft  Speed
100 30584  100 305840 0  10753  0  0:00:02  0:00:02 --:--:— 10753

Try again and select the option to download from a Master mirror if that is 
presented to you (some fink configurations don’t make that an option).

-- 
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Fink User Liaison


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Re: [Fink-users] xmgrace problems with XQuartz 2.7.10

[Alexander Hansen]

> On Oct 24, 2016, at 05:09, Ralph Gebauer <rgeba...@ictp.it> wrote:
> 
> Dear fink community,
> 
> today, I updated my XQuartz installation on OSX 10.11.6 to XQuartz 2.7.10.
> 
> Since this upgrade, I cannot start xmgrace any more, while other X11 
> application (xterm, etc.) still function ok.
> 
> The error message I get is:
> 
>> xmgrace
>> Warning: Widget must be a VendorShell.
>> Warning: Fatal Error:
>> _XmGetDefaultDisplay cannot be used prior to VendorS.Initialize, returns NULL
>> 
>> Oops! Got SIGSYS
>> 
>> Please use "Help/Comments" to report the bug.
>> Abort trap: 6
> 
> 
> Thanks for any help!
> 
> Ralph Gebauer

The Xquartz developers decided to break backwards compatibility on one of the 
X11 libraries (libXt).  We’re working on this.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Xcode 8 and command line tools on Mac OS X 10.11.6

[Alexander Hansen]

> On Oct 20, 2016, at 09:14, John Wiggins <johnwigg...@me.com> wrote:
> 
> I believe Alexander Hansen explained this issue, which I open a week or two 
> ago.  Apple claims that the old Command Line Tools may be used with Xcode 8, 
> and the warning is generated by fink being conservative to avoid issues that 
> were seen in the past when agreement between Xcode and CLTs was necessary.
> 
> 
> His response was to both this list and fink-beginners see 14oct 11:34 AM EDT 
> message with subject
> 
> Re: [Fink-users] Apple claims fink giving false warning (Bug ID 28356077 - 
> Xcode 8 installs on El Capitan.)
> 
>> (crossposting since this is now all over the place)
>> 
>> They may be right.  Here’s the deal:
>> 
>> 1)  Historically, people had problems with some builds when the Xcode app 
>> and the CLI were incompatible. 
>> 2)  We therefore had fink check the versions and display a warning which 
>> paused the build for 10 seconds to let people know to sync their versions 
>> before filing a bug report with us.
>> 3)  Apple decided that Xcode 8 and CLI tools 7.3.1 is an OK combination for 
>> 10.11.
>> 4)  We modified fink not to pause the build and to change the wording of the 
>> message slightly to indicate that unmatched Xcode and command-line tools is 
>> a _potential_ problem, since it has been, in general.  
>> 5)  However, we didn’t add anything to suppress this message for the 
>> aforementioned special case, because handling special cases adds complexity 
>> to the fink code, and because it’s not usually required to scroll back 
>> through the build logs unless the build fails.  
>> 
>> People who don’t want to see the warning are free to modify 
>> /sw/lib/perl5/Fink/Engine.pm for themselves.
>> -- 
>> Alexander Hansen, Ph.D.
>> Fink User Liaison
> 
> 
>> On Oct 20, 2016, at 12:57 AM, Doug Wade <doug_w...@shaw.ca 
>> <mailto:doug_w...@shaw.ca>> wrote:
>> 
>> One of the iMacs that I use Fink on is an iMac (Early 2009) which can only 
>> upgrade to OS X 10.11.6 and no further.
>> Xcode 8 supports OS X 10.11.6 but there appears to be no Command Line Tools 
>> since the May 3, 2016 that works on this
>> iMac. All Command Line Tools since then require Mac OS 10.12. When I use 
>> Fink I get a warning message but so far have had
>> no issues: 
>> 
>> WARNING: Xcode.app version (8.0) and Xcode Command Line Tools version (7.3)
>> may not be compatible.
>> You may experience build errors.
>> 
>> 
>> 

Yup.  Just ignore it until you get to a package which doesn’t build, and then 
let us know.

We didn’t want to disable the warning altogether, since there’s no guarantee 
that the next Xcode major version (8.1) will be 100% compatible with the Xcode 
8 tools and vice versa.  (That’s why we show the minor versions).  

We also didn’t want to set up a special case for 10.11/Xcode8 because those are 
annoying to deal with, and it’s only a warning.  We downgraded the language to 
“_may_ not be compatible” because that covers the special case of 10.11/Xcode 
8/Xcode CLI 7.3 as well as other mismatches.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] Apple claims fink giving false warning (Bug ID 28356077 - Xcode 8 installs on El Capitan.)

[Alexander Hansen]

> On Oct 14, 2016, at 05:57, John Wiggins <johnwigg...@me.com> wrote:
> 
> While running El Capitan, and after updating to Xcode 8, I could not run fink 
> because I get warning;
> WARNING: Xcode.app version (8.0) and Xcode Command Line Tools version (7.3) 
> are not compatible.
> 
> Apple claims this is false warning with fink
> 
> Apple Closed my Bug saying that the CLI works, and that the issue is with 
> fink.
> If this is not the case, please let them know.  I do not a system to test CLI 
> as I am now on Sierra on my machines.
> 
> at
> https://bugreport.apple.com/problem/viewproblem 
> <https://bugreport.apple.com/problem/viewproblem>
> Bug ID 28356077 - Xcode 8 installs on El Capitan.
> 
> 
> Apple Developer Relations   13-Oct-2016 05:13 PM
> Engineering has provided the following information regarding this issue:
> 
> Please know that there is not incompatibility.  You should report the issue 
> to fink and request that fink remove the incorrect warning.
> 
> 
> 
> Here is my bug report:
> Summary:
> The App Store allows installation of Xcode 8 on El Capitan system resulting 
> in incompatible Command Line Tools.  One cannot install  
> Command_Line_Tools_macOS_10.12_for_Xcode_8
> 
> Steps to Reproduce:
> 1. install Xcode 8 on El Capitan system from App Store.
> 
> Expected Results:
> compilation from Command Line.
> 
> Actual Results:
> WARNING: Xcode.app version (8.0) and Xcode Command Line Tools version (7.3)
> are not compatible.
> You may experience build errors.
> 
> Version:
> Xcode 8.0  (8A218a)
> 
> Notes:
> Installer should prevent installation, or bring up dialog explaining 
> incompatible Command Line Tools (and others) will result if installation 
> continues.
> 
> Configuration:
> MacOS El Capitan 10.11.6
> 
> Attachments:
> 
> --
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(crossposting since this is now all over the place)

They may be right.  Here’s the deal:

1)  Historically, people had problems with some builds when the Xcode app and 
the CLI were incompatible. 
2)  We therefore had fink check the versions and display a warning which paused 
the build for 10 seconds to let people know to sync their versions before 
filing a bug report with us.
3)  Apple decided that Xcode 8 and CLI tools 7.3.1 is an OK combination for 
10.11.
4)  We modified fink not to pause the build and to change the wording of the 
message slightly to indicate that unmatched Xcode and command-line tools is a 
_potential_ problem, since it has been, in general.  
5)  However, we didn’t add anything to suppress this message for the 
aforementioned special case, because handling special cases adds complexity to 
the fink code, and because it’s not usually required to scroll back through the 
build logs unless the build fails.  

People who don’t want to see the warning are free to modify 
/sw/lib/perl5/Fink/Engine.pm for themselves.
-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] Emacs 25: gnuplot mode still missing

[Alexander Hansen]

> On Oct 12, 2016, at 13:22, Peter Dyballa <peter_dyba...@freenet.de> wrote:
> 
> 
> Am 12.10.2016 um 21:32 schrieb Ingo Thies:
> 
>> If gnuplot support has been dropped from Fink, is there a way to
>> manually install the missing file?
> 
> Try to get
> 
> /sw/etc/emacs/site-start.d/50gnuplot.el
> /sw/share/emacs/site-lisp/gnuplot-mode/gnuplot-eldoc.el
> /sw/share/emacs/site-lisp/gnuplot-mode/gnuplot-gui.el
> /sw/share/emacs/site-lisp/gnuplot-mode/gnuplot.el
> 
> from a Time Machine backup or the old DEB files!
> 
> --
> Mit friedvollen Grüßen
> 
>  Pete
> 
> _oo o   o
>   _<< \\_/\_,   \\_ \\_/\_,
>  (*)/(*) (*)   (*) (*) `-(*)
> 
> 
> --
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That won’t work by itself (and gnuplot-4.6.7 is available as a normal Fink 
install if you want to try).  You’d also need to run the emacs integration 
script:

/sw/lib/emacsen-common/emacs-package-install gnuplot

No guarantees whether that would even work.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Emacs 25: gnuplot mode still missing

[Alexander Hansen]

> On Oct 12, 2016, at 12:32, Ingo Thies  wrote:
> 
> Hi all,
> 
> after installing the most recent Emacs I hoped to get the gnuplot-mode
> back. However, it still complains about missing gnuplot-mode file. I
> remember that gnuplot-mode vanished about the time when gnuplot was
> updated to version 5.0 (January 2015).
> 
> If gnuplot support has been dropped from Fink, is there a way to
> manually install the missing file?
> 
> Best wishes,
> 
> Ingo
> -- 
> ==
> Ingo Thies, PhD
> AIfA/HISKP
> University of Bonn
> Auf dem Huegel 71, D-53121 Bonn, Germany
> Tel : +49 (0)228 73-3659
> Mail: ith...@astro.uni-bonn.de
> 

I think I see what’s going on here.  Gnuplot upstream changed what they provide:

find /sw/src/fink.build/gnuplot-4.6.7-3/ -name *.el
/sw/src/fink.build/gnuplot-4.6.7-3//gnuplot-4.6.7/docs/doc2texi.el
/sw/src/fink.build/gnuplot-4.6.7-3//gnuplot-4.6.7/docs/gnuplot-eldoc.el
/sw/src/fink.build/gnuplot-4.6.7-3//gnuplot-4.6.7/lisp/dot.el
/sw/src/fink.build/gnuplot-4.6.7-3//gnuplot-4.6.7/lisp/gnuplot-gui.el
/sw/src/fink.build/gnuplot-4.6.7-3//gnuplot-4.6.7/lisp/gnuplot.el

find /sw/src/fink.build/gnuplot-wxcocoa-qtmac-5.0.5-1/ -name *.el
/sw/src/fink.build/gnuplot-wxcocoa-qtmac-5.0.5-1//gnuplot-5.0.5/docs/doc2texi.el
/sw/src/fink.build/gnuplot-wxcocoa-qtmac-5.0.5-1//gnuplot-5.0.5/docs/gnuplot-eldoc.el

I don’t see a configure option about building it, either, so the best option 
might be just to remove it altogether.








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Re: [Fink-users] wxwidgets: 'type_traits' file not found

[Alexander Hansen]

> On Oct 12, 2016, at 09:38, Ingo Thies  wrote:
> 
> Thanks. However, this time I get the error message
> 
> Can't resolve dependency "libimagequant0-shlibs libcerf1-shlibs" for
> package "gnuplot-5.0.5-1" (no matching packages/versions found)
> Exiting with failure.
> 
> although I have both shlibs installed (just checked!). Maybe there is
> still some dependency missing?
> 

No, there was a comma missing ( and libimagequant0-shlibs wasn’t really 
supposed to be there).  I just fixed that.

> I finally succeeded installing the development version from Sourceforge
> by disabling wx on configure distribution. However, I don't know which
> other problems thi type_traits issue may cause.
> 
> Best wishes,
> 
> Ingo
> -- 
> ==
> Ingo Thies, PhD
> AIfA/HISKP
> University of Bonn
> Auf dem Huegel 71, D-53121 Bonn, Germany
> Tel : +49 (0)228 73-3659
> Mail: ith...@astro.uni-bonn.de 
> 


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Re: [Fink-users] wxwidgets: 'type_traits' file not found

[Alexander Hansen]

> On Oct 12, 2016, at 06:44, Ingo Thies <ith...@astro.uni-bonn.de> wrote:
> 
> Hi all,
> 
> I tried to compile gnuplot 5.05 from the sources retrieved directly from
> Sourceforge. However, the make failed with the error message
> 
> /sw/include/wx-3.0/wx/strvararg.h:25:14: fatal error: 'type_traits' file
> not found
>#include 
> 
> I googled and found that the wxwidgets need to be rebuild. However,
> re-installing didn't solve the problem.
> 
> Any hints?
> 
> Best wishes,
> 
> Ingo
> -- 
> ==
> Ingo Thies, PhD
> AIfA/HISKP
> University of Bonn
> Auf dem Huegel 71, D-53121 Bonn, Germany
> Tel : +49 (0)228 73-3659
> Mail: ith...@astro.uni-bonn.de
> 

Do a selfupdate.  I just updated gnuplot.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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[Fink-users] Missing dependencies in gd3-shlibs was Re: Gnuplot didn't work after libgd update

[Alexander Hansen]

> On Oct 12, 2016, at 09:11, Alexander Hansen <alexanderk.han...@gmail.com> 
> wrote:
> 
>> 
>> On Oct 12, 2016, at 06:03, Ingo Thies <ith...@astro.uni-bonn.de> wrote:
>> 
>> Hi all,
>> 
>> after today's update of some library (must have been libgd of something
>> like that) gnuplot refuses to work. I get the following error message:
>> 
>> dyld: Library not loaded: /sw/lib/libimagequant.0.dylib
>> Referenced from: /sw/lib/libgd.3.dylib
>> Reason: image not found
>> /sw/bin/gnuplot: line 6: 37533 Trace/BPT trap: 5   /sw/bin/gnuplotx "$@"
>> 
>> Re-installing gnuplot didn't help.
>> 
>> Thanks for any advice!
>> 
>> Best wishes,
>> 
>> Ingo
>> -- 
>> ==
>> Ingo Thies, PhD
>> AIfA/HISKP
>> University of Bonn
>> Auf dem Huegel 71, D-53121 Bonn, Germany
>> Tel : +49 (0)228 73-3659
>> Mail: ith...@astro.uni-bonn.de
>> 
> 
> If by “reinstall” you mean “fink reinstall”, that does precisely nothing to 
> change the build.  That’s only good for restoring damaged/missing files and 
> re-running the installation-related scripts.
> 
> The problem isn’t with gnuplot—it doesn’t seem to care one way or the other 
> about libimagequant.  Installing libimagequant0-shlibs will give you the 
> missing file:
> 
> http://pdb.finkproject.org/pdb/filefind.php?search=imagequant_type=contains_name=default=any=any=Search
>  
> <http://pdb.finkproject.org/pdb/filefind.php?search=imagequant_type=contains_name=default=any=any=Search>
> 
> -- 
> Alexander Hansen, Ph.D.
> Fink User Liaison

gd3-shlibs and gd3-bin both appear to need to have Depends: imagequant0-shlibs 
added.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] Gnuplot didn't work after libgd update

[Alexander Hansen]

> On Oct 12, 2016, at 06:03, Ingo Thies <ith...@astro.uni-bonn.de> wrote:
> 
> Hi all,
> 
> after today's update of some library (must have been libgd of something
> like that) gnuplot refuses to work. I get the following error message:
> 
> dyld: Library not loaded: /sw/lib/libimagequant.0.dylib
>  Referenced from: /sw/lib/libgd.3.dylib
>  Reason: image not found
> /sw/bin/gnuplot: line 6: 37533 Trace/BPT trap: 5   /sw/bin/gnuplotx "$@"
> 
> Re-installing gnuplot didn't help.
> 
> Thanks for any advice!
> 
> Best wishes,
> 
> Ingo
> -- 
> ==
> Ingo Thies, PhD
> AIfA/HISKP
> University of Bonn
> Auf dem Huegel 71, D-53121 Bonn, Germany
> Tel : +49 (0)228 73-3659
> Mail: ith...@astro.uni-bonn.de
> 

If by “reinstall” you mean “fink reinstall”, that does precisely nothing to 
change the build.  That’s only good for restoring damaged/missing files and 
re-running the installation-related scripts.

The problem isn’t with gnuplot—it doesn’t seem to care one way or the other 
about libimagequant.  Installing libimagequant0-shlibs will give you the 
missing file:

http://pdb.finkproject.org/pdb/filefind.php?search=imagequant_type=contains_name=default=any=any=Search

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] wxwidgets: 'type_traits' file not found

[Alexander Hansen]

> On Oct 12, 2016, at 06:44, Ingo Thies <ith...@astro.uni-bonn.de> wrote:
> 
> Hi all,
> 
> I tried to compile gnuplot 5.05 from the sources retrieved directly from
> Sourceforge. However, the make failed with the error message
> 
> /sw/include/wx-3.0/wx/strvararg.h:25:14: fatal error: 'type_traits' file
> not found
>#include 
> 
> I googled and found that the wxwidgets need to be rebuild. However,
> re-installing didn't solve the problem.
> 
> Any hints?
> 
> Best wishes,
> 
> Ingo
> -- 
> ==
> Ingo Thies, PhD
> AIfA/HISKP
> University of Bonn
> Auf dem Huegel 71, D-53121 Bonn, Germany
> Tel : +49 (0)228 73-3659
> Mail: ith...@astro.uni-bonn.de


If you used “fink reinstall …” that will do literally nothing to change the 
build.  That just restores files from the .deb archive and runs 
installation-related scripts.

If you used “fink rebuild …” without changing the build options (or at least 
installing different packages, though ideally that shouldn’t matter), then that 
will also do nothing to change your build, because Fink intentionally tries to 
build the same way every time.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] About libmagic

[Alexander Hansen]

> On Oct 4, 2016, at 15:55, Alan  wrote:
> 
> I am wondering if it ever existed in Fink. I need libmagic.so and magic.h.
> 
> Using Mac Sierra and latest Fink.
> 
> Thanks,
> 
> Alan
> 
> -- 
> Alan Wilter SOUSA da SILVA, DSc
> Senior Bioinformatician, UniProt
> European Bioinformatics Institute (EMBL-EBI)
> European Molecular Biology Laboratory
> Wellcome Trust Genome Campus
> Hinxton
> Cambridge CB10 1SD
> United Kingdom
> Tel: +44 (0)1223 494588
> ———

Well, libmagic.so probably shouldn’t exist on OS X, unless it’s a plugin rather 
than a proper library.  There’s a file search function on the Fink webpage:

http://pdb.finkproject.org/pdb/filefind.php

But, in this case, I’m assuming that what you want is from the “file” package 
family:

$ dpkg -L file-dev
/.
/sw
/sw/include
/sw/include/magic.h
/sw/lib
/sw/lib/libmagic.a
/sw/lib/libmagic.la
/sw/share
/sw/share/man
/sw/share/man/man3
/sw/share/man/man3/libmagic.3
/sw/lib/libmagic.dylib

Fionna-4:~ hansen$ dpkg -L file-shlibs 
/.
/sw
/sw/lib
/sw/lib/libmagic.1.dylib

(those really needs to have COPYING documents, if the maintainer happens to 
read this)

—Alex


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Re: [Fink-users] Is xfig maintened ?

[Alexander Hansen]

> On Oct 3, 2016, at 06:56, Philippe Spiesser <ann.onym...@orange.fr> wrote:
> 
> Hello,
> 
> about one time by year, I use xfig generated with fink on Mac.
> 
> Recently, I've upgraded Mac OS X to Sierra with Xcode 8, Xquartz 2.7.9 and
> fink 0.41.0 ; I have xfig 3.2.6 generated with El Capitan.
> 
> Now, I don't run xfig :
> $ xfig
> Segmentation fault: 11
> 
> I suppose it's a problem with graphic displaying because
>  xfig -h
> or
>  xfig -v
> are OK :
>  $ xfig -v
>  Xfig 3.2.6
>  $
> 
> I've removed then rebuild from source xfig without a better result.
> 
> I'd tried to contact maintainer by private mail (Maintainer: Dave
> Morrison <d...@finkproject.org>) without success ;
> Message expired for domain finkproject.org. Remote host said:
> 454 4.7.1 <d...@finkproject.org>: Relay access denied
> 
> and also I can't acceeded to xfig' website (www.xfig.org) seems off.
> 
> Has somebody an explanation ?
> 
> Regards
> 
> --
>Philippe Spiesser


A) (unrelated to the real problem)  We have been a bit slow about changing 
people’s maintainer addresses because we keep hoping they’ll come back.  I’ve 
formally de-maintained the package and updated the homepage.

Now, for the real problem.

XQuartz-2.7.9 broke compatibility in the libXt library, which is linked in this 
case by xfig and the libXaw3d library on which it also depends.  Your error 
message suggests that you might have a mixed build of the two, such as by 
having a libXaw3d which was built before the changeover and an xfig which was 
built afterward.

Try “fink rebuild libxaw3dxft-shlibs” first.  Then if that doesn’t work, next 
try “fink rebuild xfig”

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Error in installing guile20

[Alexander Hansen]

> On Sep 30, 2016, at 07:30, Derek Homeier 
>  wrote:
> 
> On 30 Sep 2016, at 12:02 pm, Alan  wrote:
>> 
>> Well, I gave a try, I copied from stable to local and appended 
>> 
>> /sw/fink/dists/local/main/finkinfo/languages/guile20.patch
>> 
>> with lines from 
>> https://gist.github.com/rahulg/baa500e84136f0965e9ade2fb36b90ba
>> 
>> but, alas, it didn't work.
>> 
> That patch file is outdated and no longer used; you'd need to replace it 
> completely with the new
> patch and then modify the info file to use it again in the internal patch 
> script it is using now.
> But note that this issue has been discussed on the list before:
> 
>> On 15 Aug 2016, at 8:35 pm, Jack Howarth  wrote:
>> 
>> Alternatively, rather than applying that ugly unreviewed patch, we could 
>> probably just pass ac_cv_func_clock_gettime=no to configure to avoid the new 
>> system calls until upstream catches up with the deviations in the Mac OS X 
>> implementation.
>>   Jack
>> 
>> On Mon, Aug 15, 2016 at 1:22 PM, Jack Howarth  
>> wrote:
>> The build issue for guile20 (and I assume also guile18) on 10.12 is 
>> described in...
>> 
>> http://lists.gnu.org/archive/html/bug-guile/2016-06/msg00252.html
>> 
>> and a hack to work around it proposed at...
>> 
>> https://gist.github.com/rahulg/baa500e84136f0965e9ade2fb36b90ba
>> 
> So you might first try to add the above definition to ConfigureParams (see 
> attached .info); however I found
> on Yosemite that ac_cv_func_clock_gettime=no is already set by default (see 
> build/config.log in the package
> build dir how it’s set on your system).
> So if that does not work, you’d have to uncomment the PatchFile*, and in the 
> PatchScript the %{default_script},
> lines in the .info file if you wish to test that patch under Sierra. It does 
> compile under Yosemite and passes all
> tests except one (the same failure shows up with the standard setup), but I 
> cannot tell if it resolves the problem
> under 10.12...
> 
> HTH
>   Derek
> 
> ———

If you want to set ac_cv_func_clock_getttime, you can try doing that in 
guile20’s CompileScript by changing

../configure %c

to

ac_cv_func_clock_gettime=no ../configure %c

(no guarantees that it works—I haven’t had a chance to try it on Sierra).

—Akh


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Re: [Fink-users] Failed: can't install package fink-0.41.0-101 ... (message 2)

[Alexander Hansen]

> On Sep 26, 2016, at 15:26, Saleh Elmohamed <m.a.saleh.elmoha...@gmail.com> 
> wrote:
> 
> see below…
> 
>> On Sep 26, 2016, at 3:06 PM, Alexander Hansen <alexanderk.han...@gmail.com> 
>> wrote:
>> 
>> 
>>> On Sep 26, 2016, at 15:00, Saleh Elmohamed <m.a.saleh.elmoha...@gmail.com> 
>>> wrote:
>>> 
>>> Hi Alex,
>>> 
>>> Thanks for your help. See reply below …
>>> 
>>>> On Sep 26, 2016, at 2:51 PM, Alexander Hansen 
>>>> <alexanderk.han...@gmail.com> wrote:
>>>> 
>>>> 
>>>>> On Sep 26, 2016, at 14:35, Saleh Elmohamed 
>>>>> <m.a.saleh.elmoha...@gmail.com> wrote:
>>>>> 
>>>>> Hi all,
>>>>> 
>>>>> Thought to re-send a note on a bug during selfupdate … Thanks for any
>>>>> suggestions on a possible fix to it.
>>>>> 
>>>>> -S
>>>>> 
>>>>> 
>>>>> 
>>>>> 
>>>>>>> fink selfupdate
>>>>> 
>>>>> /usr/bin/rsync -az -q  
>>>>> rsync://distfiles.master.finkmirrors.net/finkinfo//TIMESTAMP 
>>>>> /sw/fink/TIMESTAMP.tmp
>>>>> I will now run the rsync command to retrieve the latest package 
>>>>> descriptions. 
>>>>> /usr/bin/rsync -rtz --delete-after --delete -q   --include='10.9-libcxx/' 
>>>>> --include='10.9-libcxx/stable/' --include='10.9-libcxx/stable/main/' 
>>>>> --include='10.9-libcxx/stable/main/finkinfo/' 
>>>>> --include='10.9-libcxx/stable/main/finkinfo/*/' 
>>>>> --include='10.9-libcxx/stable/main/finkinfo/*' 
>>>>> --include='10.9-libcxx/stable/main/finkinfo/**/*' --include='VERSION' 
>>>>> --include='DISTRIBUTION' --include='README' --exclude='**' 
>>>>> 'rsync://distfiles.master.finkmirrors.net/finkinfo' '/sw/fink/'
>>>>> Downloading the indexes of available packages in the binary distribution.
>>>>> /sw/bin/apt-get-lockwait -q update
>>>>> Hit http://bindist.finkmirrors.net stable/main Packages
>>>>> Hit http://bindist.finkmirrors.net stable/main Release
>>>>> Reading Package Lists...
>>>>> Building Dependency Tree...
>>>>> Scanning package description files..
>>>>> Information about 9858 packages read in 1 seconds.
>>>>> The following package will be installed or updated:
>>>>> fink
>>>>> Reading buildlock packages...
>>>>> /sw/bin/dpkg-lockwait -i 
>>>>> /sw/var/cache/apt/archives/fink_0.41.0-101_darwin-x86%5f64.deb
>>>>> (Reading database ... 146490 files and directories currently installed.)
>>>>> Preparing to replace fink 0.41.0-101 (using 
>>>>> .../fink_0.41.0-101_darwin-x86%5f64.deb) ...
>>>>> Unpacking replacement fink ...
>>>>> Setting up fink (0.41.0-101) ...
>>>>> Checking system... i386-apple-darwin15.6.0
>>>>> Under Mac OS X 10.11.6, Fink must be bootstrapped or updated with gcc
>>>>> 4.2, however, you currently have gcc (unknown version) selected.
>>>>> Make sure that your developer tools are current for your system and
>>>>> have not been locally modified.
>>>>> /sw/bin/dpkg: error processing fink (--install):
>>>>> subprocess post-installation script returned error exit status 69
>>>>> Errors were encountered while processing:
>>>>> fink
>>>>> ### execution of /sw/bin/dpkg-lockwait failed, exit code 1
>>>>> Failed: can't install package fink-0.41.0-101
>>>>> 
>>>> 
>>>> (we should probably change the gcc version message here)
>>>> 
>>>> Whoops, I forgot about your original post.  Sorry about that.
>>>> 
>>>> The message usually comes comes up when gcc (really clang, now) gives an 
>>>> output which is unexpected. What do you get from the following commands:
>>>> 
>>> 
>>>> /usr/bin/gcc —version
>>> 
>>> Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr 
>>> --with-gxx-include-dir=/usr/include/c++/4.2.1
>>> Apple LLVM version 8.0.0 (clang-800.0.38)
>>> Target: x86_64-apple-darwin15.6.0
>>> Thread model: posix
>>> InstalledDir: 
>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
>>> 
>>>> ls -l /usr/bin/gcc
>>> 
>>> -rwxr-xr-x  1 root  wheel  18176 Jul  8 19:52 /usr/bin/gcc
>>> 
>>>> 
>>>> ?
>> 
>> Hmm.  Those look OK.  Guess we’ll need to look for some more obscure things.
>> 
>> Do you happen to have an executable called gcc_select in your PATH?  (“which 
>> gcc_select”) ?  That used to be provided by Apple and we used it, and 
>> there’s still some legacy hooks that might be picking that out.
> 
> 
> which gcc_select
> 
> yields no information …. nothing … blank

That’s what we want. :-)  We’ve had people add their own “gcc_select” and 
actually mess fink up until it was removed.--
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Re: [Fink-users] Failed: can't install package fink-0.41.0-101 ... (message 2)

[Alexander Hansen]

> On Sep 26, 2016, at 15:15, Saleh Elmohamed  
> wrote:
> 
> Hi Alex,
> 
> It looks ok now. Likely I might have forgotten to agree
> initially to the license. Once that was done it appears
> to be ok as it looks:
> 
> 
> >> fink selfupdate
> /usr/bin/rsync -az -q  
> rsync://distfiles.master.finkmirrors.net/finkinfo//TIMESTAMP 
> /sw/fink/TIMESTAMP.tmp
> I will now run the rsync command to retrieve the latest package descriptions. 
> /usr/bin/rsync -rtz --delete-after --delete -q   --include='10.9-libcxx/' 
> --include='10.9-libcxx/stable/' --include='10.9-libcxx/stable/main/' 
> --include='10.9-libcxx/stable/main/finkinfo/' 
> --include='10.9-libcxx/stable/main/finkinfo/*/' 
> --include='10.9-libcxx/stable/main/finkinfo/*' 
> --include='10.9-libcxx/stable/main/finkinfo/**/*' --include='VERSION' 
> --include='DISTRIBUTION' --include='README' --exclude='**' 
> 'rsync://distfiles.master.finkmirrors.net/finkinfo' '/sw/fink/'
> Downloading the indexes of available packages in the binary distribution.
> /sw/bin/apt-get-lockwait -q update
> Hit http://bindist.finkmirrors.net stable/main Packages
> Hit http://bindist.finkmirrors.net stable/main Release
> Reading Package Lists...
> Building Dependency Tree...
> Scanning package description files..
> Information about 9858 packages read in 1 seconds.
> No packages to install.
> 
> The core packages have been updated. You should now update the other packages 
> using
> commands like 'fink update-all’.
> 
> >> fink update-all
> Information about 9858 packages read in 16 seconds.
> No packages to install.
> 

Ah!  That makes sense.

—akh


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Re: [Fink-users] Failed: can't install package fink-0.41.0-101 ... (message 2)

[Alexander Hansen]

> On Sep 26, 2016, at 15:00, Saleh Elmohamed <m.a.saleh.elmoha...@gmail.com> 
> wrote:
> 
> Hi Alex,
> 
> Thanks for your help. See reply below …
> 
>> On Sep 26, 2016, at 2:51 PM, Alexander Hansen <alexanderk.han...@gmail.com> 
>> wrote:
>> 
>> 
>>> On Sep 26, 2016, at 14:35, Saleh Elmohamed <m.a.saleh.elmoha...@gmail.com> 
>>> wrote:
>>> 
>>> Hi all,
>>> 
>>> Thought to re-send a note on a bug during selfupdate … Thanks for any
>>> suggestions on a possible fix to it.
>>> 
>>> -S
>>> 
>>> 
>>> 
>>> 
>>>>> fink selfupdate
>>> 
>>> /usr/bin/rsync -az -q  
>>> rsync://distfiles.master.finkmirrors.net/finkinfo//TIMESTAMP 
>>> /sw/fink/TIMESTAMP.tmp
>>> I will now run the rsync command to retrieve the latest package 
>>> descriptions. 
>>> /usr/bin/rsync -rtz --delete-after --delete -q   --include='10.9-libcxx/' 
>>> --include='10.9-libcxx/stable/' --include='10.9-libcxx/stable/main/' 
>>> --include='10.9-libcxx/stable/main/finkinfo/' 
>>> --include='10.9-libcxx/stable/main/finkinfo/*/' 
>>> --include='10.9-libcxx/stable/main/finkinfo/*' 
>>> --include='10.9-libcxx/stable/main/finkinfo/**/*' --include='VERSION' 
>>> --include='DISTRIBUTION' --include='README' --exclude='**' 
>>> 'rsync://distfiles.master.finkmirrors.net/finkinfo' '/sw/fink/'
>>> Downloading the indexes of available packages in the binary distribution.
>>> /sw/bin/apt-get-lockwait -q update
>>> Hit http://bindist.finkmirrors.net stable/main Packages
>>> Hit http://bindist.finkmirrors.net stable/main Release
>>> Reading Package Lists...
>>> Building Dependency Tree...
>>> Scanning package description files..
>>> Information about 9858 packages read in 1 seconds.
>>> The following package will be installed or updated:
>>> fink
>>> Reading buildlock packages...
>>> /sw/bin/dpkg-lockwait -i 
>>> /sw/var/cache/apt/archives/fink_0.41.0-101_darwin-x86%5f64.deb
>>> (Reading database ... 146490 files and directories currently installed.)
>>> Preparing to replace fink 0.41.0-101 (using 
>>> .../fink_0.41.0-101_darwin-x86%5f64.deb) ...
>>> Unpacking replacement fink ...
>>> Setting up fink (0.41.0-101) ...
>>> Checking system... i386-apple-darwin15.6.0
>>> Under Mac OS X 10.11.6, Fink must be bootstrapped or updated with gcc
>>> 4.2, however, you currently have gcc (unknown version) selected.
>>> Make sure that your developer tools are current for your system and
>>> have not been locally modified.
>>> /sw/bin/dpkg: error processing fink (--install):
>>> subprocess post-installation script returned error exit status 69
>>> Errors were encountered while processing:
>>> fink
>>> ### execution of /sw/bin/dpkg-lockwait failed, exit code 1
>>> Failed: can't install package fink-0.41.0-101
>>> 
>> 
>> (we should probably change the gcc version message here)
>> 
>> Whoops, I forgot about your original post.  Sorry about that.
>> 
>> The message usually comes comes up when gcc (really clang, now) gives an 
>> output which is unexpected.  What do you get from the following commands:
>> 
> 
>> /usr/bin/gcc —version
> 
> Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr 
> --with-gxx-include-dir=/usr/include/c++/4.2.1
> Apple LLVM version 8.0.0 (clang-800.0.38)
> Target: x86_64-apple-darwin15.6.0
> Thread model: posix
> InstalledDir: 
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
> 
>> ls -l /usr/bin/gcc
> 
> -rwxr-xr-x  1 root  wheel  18176 Jul  8 19:52 /usr/bin/gcc
> 
>> 
>> ?

Hmm.  Those look OK.  Guess we’ll need to look for some more obscure things.

Do you happen to have an executable called gcc_select in your PATH?  (“which 
gcc_select”) ?  That used to be provided by Apple and we used it, and there’s 
still some legacy hooks that might be picking that out.


-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Failed: can't install package fink-0.41.0-101 ... (message 2)

[Alexander Hansen]

> On Sep 26, 2016, at 14:35, Saleh Elmohamed  
> wrote:
> 
> Hi all,
> 
> Thought to re-send a note on a bug during selfupdate … Thanks for any
> suggestions on a possible fix to it.
> 
> -S
> 
> 
> 
> 
> >> fink selfupdate
> 
> /usr/bin/rsync -az -q  
> rsync://distfiles.master.finkmirrors.net/finkinfo//TIMESTAMP 
> /sw/fink/TIMESTAMP.tmp
> I will now run the rsync command to retrieve the latest package descriptions. 
> /usr/bin/rsync -rtz --delete-after --delete -q   --include='10.9-libcxx/' 
> --include='10.9-libcxx/stable/' --include='10.9-libcxx/stable/main/' 
> --include='10.9-libcxx/stable/main/finkinfo/' 
> --include='10.9-libcxx/stable/main/finkinfo/*/' 
> --include='10.9-libcxx/stable/main/finkinfo/*' 
> --include='10.9-libcxx/stable/main/finkinfo/**/*' --include='VERSION' 
> --include='DISTRIBUTION' --include='README' --exclude='**' 
> 'rsync://distfiles.master.finkmirrors.net/finkinfo' '/sw/fink/'
> Downloading the indexes of available packages in the binary distribution.
> /sw/bin/apt-get-lockwait -q update
> Hit http://bindist.finkmirrors.net stable/main Packages
> Hit http://bindist.finkmirrors.net stable/main Release
> Reading Package Lists...
> Building Dependency Tree...
> Scanning package description files..
> Information about 9858 packages read in 1 seconds.
> The following package will be installed or updated:
>  fink
> Reading buildlock packages...
> /sw/bin/dpkg-lockwait -i 
> /sw/var/cache/apt/archives/fink_0.41.0-101_darwin-x86%5f64.deb
> (Reading database ... 146490 files and directories currently installed.)
> Preparing to replace fink 0.41.0-101 (using 
> .../fink_0.41.0-101_darwin-x86%5f64.deb) ...
> Unpacking replacement fink ...
> Setting up fink (0.41.0-101) ...
> Checking system... i386-apple-darwin15.6.0
> Under Mac OS X 10.11.6, Fink must be bootstrapped or updated with gcc
> 4.2, however, you currently have gcc (unknown version) selected.
> Make sure that your developer tools are current for your system and
> have not been locally modified.
> /sw/bin/dpkg: error processing fink (--install):
>  subprocess post-installation script returned error exit status 69
> Errors were encountered while processing:
>  fink
> ### execution of /sw/bin/dpkg-lockwait failed, exit code 1
> Failed: can't install package fink-0.41.0-101
> 

(we should probably change the gcc version message here)

Whoops, I forgot about your original post.  Sorry about that.

The message usually comes comes up when gcc (really clang, now) gives an output 
which is unexpected.  What do you get from the following commands:

/usr/bin/gcc --version
ls -l /usr/bin/gcc

?


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Re: [Fink-users] fink-0.41.0-101 du_sk.t build failure

[Alexander Hansen]

;> fink-0.41.0/update/ltconfig
>> fink-0.41.0/update/ltmain.sh
>> fink-0.41.0/update/Makefile.in.in
>> fink-0.41.0/update-packages/
>> fink-0.41.0/update-packages/README
>> fink-0.41.0/USAGE
>> fink-0.41.0/USAGE.html
>> fink-0.41.0/Usage.md
>> fink-0.41.0/VERSION
>> ./pre-build-test.sh
>> make test PREFIX=/sw ARCHITECTURE=x86_64 DISTRIBUTION=10.11
>> perl -MExtUtils::Manifest=fullcheck -e 'my($missing, $extra) = 
>> fullcheck;exit (@$missing || @$extra)'
>> ./setup.sh /sw/src/fink.build/fink-0.41.0-101/t/basepath x86_64
>> Creating ...
>> Creating fink-virtual-pkgs...
>> Creating fink-instscripts...
>> Creating fink-scanpackages...
>> Creating pathsetup.sh...
>> Creating FinkVersion.pm...
>> Creating Fink.pm...
>> Creating man pages...
>> Creating shlibs default file...
>> Creating postinstall script...
>> Creating dpkg helper script...
>> Creating lockwait wrappers...
>> Creating g++ wrappers...
>> Creating compiler wrapper
>> cd t && ./testmore.pl && find . -name '*.t' | sort | PREFIX="/sw" xargs 
>> /usr/bin/perl -I`pwd`/../perlmod -MTest::Harness -e 'runtests(@ARGV)'
>> Checking for Test::More...
>> ./00compile.t  ok 
>> ./10features/users_groups.t .. ok   
>> ./10features/volume.t  ok   
>> ./Base/initialize.t .. ok   
>> ./Base/param.t ... ok
>> ./Base/param_boolean.t ... ok 
>> ./CLI/capture.t .. ok
>> ./Command/cat.t .. ok   
>> ./Command/chowname.t . ok   
>> ./Command/commands.t . ok
>> ./Command/du_sk.t  1/6 
>> #   Failed test 'can get a regular size'
>> #   at ./Command/du_sk.t line 11.
>> # Looks like you failed 1 test of 6.
>> ./Command/du_sk.t  Dubious, test returned 1 (wstat 
>> 256, 0x100)
>> Failed 1/6 subtests 
>>  (less 1 skipped subtest: 4 okay)
>> ./Command/exports.t .. ok   
>> ./Command/failure.t .. ok
>> ./Command/touch.t  ok
>> ./Config/exports.t ... ok   
>> ./Config/failure.t ... ok   
>> ./Config/flag.t .. ok   
>> ./Config/load_save.t . ok 
>> ./Config/options.t ... ok   
>> ./Config/param.t . ok   
>> ./Config/verbosity_level.t ... ok   
>> ./Engine/fetch.t . ok 
>> ./Finally/buildlocks.t ... ok   
>> ./Finally/finally.t .. ok
>> ./FinkVersion/exports.t .. ok   
>> ./FinkVersion/version.t .. ok   
>> ./Mirror/exports.t ... ok   
>> ./Notify/exports.t ... ok   
>> ./Package/duplicate_fullnames.t .. ok   
>> ./PkgVersion/get_perl.t .. ok
>> ./PkgVersion/get_ruby.t .. ok
>> ./PkgVersion/get_splitoffs.t . ok 
>> ./PkgVersion/non_consecutive_source.t  ok   
>> ./SelfUpdate/last_done.t . ok 
>> ./SelfUpdate/subclasses.t  ok 
>> ./Services/eval_conditional.t  ok
>> ./Services/execute_nonroot_okay.t  ok 
>> ./Services/expand_percent.t .. ok
>> ./Services/prepare_script.t .. ok
>> ./Services/spec2struct.t . ok
>> ./Services/version_cmp.t . ok
>> ./Text/DelimMatch/DelimMatch.t ... ok 
>> ./Text/ParseWords/ParseWords.t ... ok 
>> ./Text/ParseWords/taint.t  ok   
>> ./Tie/IxHash/each-delete.t ... ok   
>> ./Tie/IxHash/ixhash.t  ok 
>> ./Validation/_filename_versioning_cmp.t .. ok 
>> ./Validation/exports.t ... ok   
>> 
>> Test Summary Report
>> ---
>> ./Command/du_sk.t  (Wstat: 256 Tests: 6 Failed: 1)
>>   Failed test:  1
>>   Non-zero exit status: 1
>> Files=48, Tests=1065, 10 wallclock secs ( 0.27 usr  0.12 sys +  4.73 cusr  
>> 1.12 csys =  6.24 CPU)
>> Result: FAIL
>> Failed 1/48 test programs. 1/1065 subtests failed.
>> make: *** [test] Error 1
>> ### execution of make failed, exit code 2
>> Removing runtime build-lock...
>> Removing build-lock package...
>> /sw/bin/dpkg-lockwait -r fink-buildlock-fink-0.41.0-101
>> (Reading database ... 180190 files and directories currently installed.)
>> Removing fink-buildlock-fink-0.41.0-101 ...
>> Failed: phase compiling: fink-0.41.0-101 failed
>> 
>> Before reporting any errors, please run "fink selfupdate" and try again.
>> Also try using "fink configure" to set your maximum build jobs to 1 and
>> attempt to build the package again.
>> If you continue to have issues, please check to see if the FAQ on Fink's 
>> website solves the problem.  If not, ask on one (not both, please) of
>> these mailing lists:
>> 
>>  The Fink Users List <fink-users@lists.sourceforge.net>
>>  The Fink Beginners List <fink-beginn...@lists.sourceforge.net>.
>> 
>> Please try to include the complete error message in your report.  This
>> generally consists of a compiler line starting with e.g. "gcc" or "g++"
>> followed by the actual error output from the compiler.
>> 
>> Also include the following system information:
>> Package manager version: 0.39.5
>> Distribution version: selfupdate-rsync Wed Sep 21 11:37:21 2016, 10.11, 
>> x86_64
>> Trees: local/main stable/main
>> Xcode.app: 8.0
>> Xcode command-line tools: 8.0.0.0.1.1472435881
>> Max. Fink build jobs:  24
> 

What’s a cMP ?  Having to look up people’s TLAs is a big ask for a volunteer 
support staff.

Could you please explain your storage configuration in less technical terms?   
My work environment isn’t Mac-oriented, for example, so I have absolutely no 
reason to know anything about Core Storage, etc. 

-- 
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Re: [Fink-users] Fink on El Capitan

[Alexander Hansen]

> On Sep 22, 2016, at 09:21, PNM <p...@minoofar.com> wrote:
> 
> Hi guys,
> 
> I assumed that for those of us with ancient computers stuck on El Capitan, 
> fink selfupdate will be the proper course for some time to come. Kindly 
> advise if changes are imminent.
> 
> Best,
> Payam
> __
> "On the contrary, like so many of his fellow party members, [General José 
> Raquel Moncada] was an antimilitarist. He considered military men 
> unprincipled loafers, ambitious plotters, experts in facing down civilians in 
> order to prosper in times of disorder." 
> --Gabriel García Márquez, One Hundred Years of Solitude
> 
> 
> --
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That’s right.  The only mild change is that we don’t pause builds any more 
because of mismatched Xcode.app and Xcode CLI—because Apple decided to have use 
Xcode 8 with the 7.x command-line tools there.

-- 
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Re: [Fink-users] fink fails to recognize updated CLT

[Alexander Hansen]

> On Sep 18, 2016, at 02:14, Alessio Sarti <sartiales...@gmail.com> wrote:
> 
> Dear all,
> since I have updated to latest Xcode [8A218a build] with related Command Line 
> Tools, I am getting the 
> “WARNING: Xcode.app version (8.0) and Xcode Command Line Tools version (7.3)” 
> warning..
> 
> How can I get rid of it?
> 
> I am using:
> fink --version
> Package manager version: 0.39.5
> Distribution version: selfupdate-rsync Sun Sep 18 10:13:46 2016, 10.11, x86_64
> Trees: local/main stable/main local/injected
> 
> Thanks,
> Alessio Sarti
> 
> “It's just that you're about to do something out of the ordinary. And after 
> you do something like that, the everyday look of things might seem to change 
> a little. Things may look different to you than they did before. But don't 
> let appearances fool you. There's always only one reality.” 
> ― Haruki Murakami, 1Q84
> 
> 
> --
> ___
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Apple didn’t release updated Command Line Tools for Xcode 8 on 10.11, so fink 
is correct.

This warning was originally intended to help users notice the cause of 
potential build problems since updating Xcode _doesn’t_ actually update the 
Command tools automatically (not since 10.9, anyway).  According to someone at 
Apple, Xcode 8 + the 7.3.1 command line tools is an OK combination, but this 
hasn’t been tested exhaustively.  

You’re free to modify /sw/lib/perl5/fink/Engine.pm to suppress this warning.  
We might turn it off in the next fink release.  Or, you can download Xcode 7.3 
and install it.

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Re: [Fink-users] A question about VIM i GUI mode

[Alexander Hansen]

> On Sep 16, 2016, at 08:48, Bill Waggoner <ctgreybe...@gmail.com> wrote:
> 
> I love vim. I run vim usually in GUI mode via gvim all the time. I've noticed 
> that the fink version does not fork when it starts. On other platforms 
> (Raspberry Pi for example) gvim forks as the documentation says it should.
> 
> Is there a way I can get the fink version to fork? There is a --nofork option 
> but no --fork one that I can tell.
> 
> Bill Waggoner
> -- 
> Bill W
> --
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Very likely not.  The vim executable links to the CoreFoundation framework, and 
that doesn’t really get along with forking—it was disallowed as of 10.5.

-- 
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Re: [Fink-users] dnspython 3?

[Alexander Hansen]

> On Sep 10, 2016, at 09:04, Bill Waggoner <ctgreybe...@gmail.com> wrote:
> 
> I tried emailing the maintainer (Steve Huff 
> <hakamad...@users.sourceforge.net>) for dnspython asking whether a Python 3 
> version was in the work but the email bounced.
> 
> Does anyone know of the Py3 status of this package?
> 
> I might try to port it myself but it would be my first at porting to fink. If 
> there is info online (I haven't searched yet myself) on how to do that I 
> would appreciate a link or two.
> 
> Bill Waggoner
> -- 
> Bill W
> --
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For general packaging guidelines:

Packaging Tutorial: http://www.finkproject.org/doc/quick-start-pkg/index.php
Packaging Manual: http://www.finkproject.org/doc/packaging/index.php

For more specific issues, the best place to look is at similar packages, i.e. 
the various *py.info in libs/pythonmods.

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Re: [Fink-users] Pango Problem

[Alexander Hansen]

> On Sep 5, 2016, at 00:11, doctorjl...@earthlink.net wrote:
> 
> On 2015 Sep 13, at 21:23, David Lowe <doctorjl...@earthlink.net> wrote:
> 
>   I’m reopening an old thread in hopes of understanding what is going on 
> here.  I upgraded my laptop to El Capitan from Mountain Lion, blew away all 
> of /sw and started over.  After bootstrapping, i built my package [freeciv].  
> Fink built it without pango1-xft2-ft219-dev, which is a BuildDepends for 
> freeciv.  


Wait.  You said that you built it _without_ pango1-xft2-ft219-dev AND that 
pango1-xft2-ft219-dev is a BuildDepends.  That’s not possible.

> It doesn’t run right:
> 
>> (freeciv-gtk2:39247): Pango-CRITICAL **: No modules found:
>> No builtin or dynamically loaded modules were found.
>> PangoFc will not work correctly.
>> This probably means there was an error in the creation of:
>>  '/sw/lib/pango-ft219/etc/pango/pango.modules'
>> You should create this file by running:
>>  pango-querymodules > '/sw/lib/pango-ft219/etc/pango/pango.modules'
>> 
>> (freeciv-gtk2:39247): Pango-WARNING **: failed to choose a font, expect ugly 
>> output. engine-type='PangoRenderFc', script='common'
> 
> 
>   This is exactly what i saw a year ago when i got a new desktop [with 
> Yosemite].  Installing pango1-xft2-ft219, then rebuilding freeciv brought in 
> a whole other raft of packages that are supposedly BuildDepends [atk1, cairo, 
> etc].  Is this somehow a knock-on effect from using prebuilt binaries, or 
> what?  Is there anything i can change in the info file so that this stuff is 
> actually fetched and built the first time??
> 
>> [doctorjlowe@Daves-i7:bin]$ fink install pango1-xft2-ft219
>> Information about 9834 packages read in 19 seconds.
>> The following package will be installed or updated:
>> pango1-xft2-ft219
>> /sw/bin/apt-get-lockwait -q --ignore-breakage --download-only install 
>> pango1-xft2-ft219=1.24.5-10
>> Reading Package Lists...
>> Building Dependency Tree...
>> The following NEW packages will be installed:
>>  pango1-xft2-ft219 
>> 0 packages upgraded, 1 newly installed, 0 to remove and 0  not upgraded.
>> Need to get 84.3kB of archives. After unpacking 274kB will be used.
>> Get:1 http://bindist.finkmirrors.net stable/main pango1-xft2-ft219 1.24.5-10 
>> [84.3kB]
>> Fetched 84.3kB in 0s (175kB/s)
>> Download complete and in download only mode
>> Reading buildlock packages...
>> /sw/bin/dpkg-lockwait -i 
>> /sw/var/cache/apt/archives/pango1-xft2-ft219_1.24.5-10_darwin-x86%5f64.deb
>> Selecting previously deselected package pango1-xft2-ft219.
>> (Reading database ... 10314 files and directories currently installed.)
>> Unpacking pango1-xft2-ft219 (from 
>> .../pango1-xft2-ft219_1.24.5-10_darwin-x86%5f64.deb) ...
>> Setting up pango1-xft2-ft219 (1.24.5-10) ...
>> 
>> [doctorjlowe@Daves-i7:bin]$ fink rebuild freeciv
>> Information about 9834 packages read in 2 seconds.
>> The following package will be rebuilt:
>> freeciv
>> The following 17 additional packages will be installed:
>> atk1 cairo fink-package-precedence fontconfig2-dev freetype219 gettext-tools 
>> glib2-dev gtk+2 gtk+2-dev libcurl4 liblzma5 libmagickcore6.9.q16.2-dev 
>> libmagickwand6.9.q16.2-dev
>> pango1-xft2-ft219-dev readline6 sdl sdl-mixer
> 
> ———
> ___


It sounds like you need a BuildDepends: pango1-xft2-ft219, since actually 
installs %p/lib/pango-ft219/etc/pango/pango.modules and 
%p/bin/pango-ft219-querymodules.

Also, according to the usage instructions:

Fionna-3:~ hansen$ fink info pango1-xft2-ft219
Scanning package description files..
Information about 9873 packages read in 1 seconds.

pango1-xft2-ft219-1.24.5-10: GTK+ - i18n libs (for freetype >= 2.1.9)
 System for layout and rendering of internationalized text.
 .
 These packages link against fink's freetype219 instead of the freetype
 that comes as part of x11.  They also have cairo support.
 .
 Usage Notes:
 Packages which install pango module(s) should call update-pango-ft219-modules
 in their PostInstScript and PostRmScript to update the pango.modules file.
 .
 The headers and libraries needed at build time are in
 /sw/lib/pango-ft219/{include,lib}, and also (as of 1.22.0-3) in the
 normal places (/sw/{include,lib}).
 .
 Web site: http://www.pango.org
 .
 Maintainer: The Gnome Core Team <fink-gnome-c...@lists.sourceforge.net>

-- 
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Re: [Fink-users] Mac OS X Sierra (beta)

[Alexander Hansen]

> On Aug 19, 2016, at 21:37, Doug Wade <doug_w...@shaw.ca> wrote:
> 
> May well be a stupid question… Any consequences for updating this machine to 
> OS X Sierra beta and continuing to use Fink? So far I only updated a laptop 
> that I will call my beta so can easily not bother with anything further. 
> 
> Doug Wade
> doug_w...@shaw.ca
> 
> 
> 
> 
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There are a few potential issues.

1) If you didn’t install the “sierra-alpha-bravo” development branch of fink 
before updating the OS, then the fink package will not be able to update itself 
and you won’t be able to selfupdate, either.  You can update fink in place to 
handle that, however.  Let me know if you’d like a list of changes to apply 
(off list, because there will probably be even more changes and I don’t want 
folks to find it in the archives and try to use it when it’s no longer 
appropriate).  After you do that, then I’d recommend cloning the 
sierra-alpha-bravo branch from github and installing from that, because you 
will then have access to updates via git until we do the formal release.

2)  It’s likely, but not guaranteed, that any other existing programs and 
libraries will continue to work.  

3) Some packages may not be available to you.  In a good number of cases that 
is due to explicit distribution tagging which hasn’t added 10.12 to the 
available options.  Let us know when you hit a hole and we’ll see about filling 
it.

4) Some packages may not build.  Please report anything you find so that such 
packages can be fixed.

-- 
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Re: [Fink-users] guile20 error compiling under 10.12

[Alexander Hansen]

> On Aug 15, 2016, at 10:22, Jack Howarth  wrote:
> 
> The build issue for guile20 (and I assume also guile18) on 10.12 is described 
> in...
> 
> http://lists.gnu.org/archive/html/bug-guile/2016-06/msg00252.html 
> 
> 
> and a hack to work around it proposed at...
> 
> https://gist.github.com/rahulg/baa500e84136f0965e9ade2fb36b90ba 
> 
> 
>  Jack

This patch would require a tweak in the guile20 build procedure.  When I’m not 
at work I can come up with something for that.

—akh--
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Re: [Fink-users] guile20 error compiling under 10.12

[Alexander Hansen]

> On Aug 15, 2016, at 05:10, Kevin Gardner <kevin.gard...@asrc.cuny.edu> wrote:
> 
>  
> Hi all:
>Running into a fatal compilation error for guile20 under the bleeding edge 
> MacOS 10.12 / XCode 8 / fink sierra-alpha-bravo combination.  Info attached 
> below, glad to provide more as needed —
> 
> Thanks,
> Kevin
> 
> ...
> SNARF vports.doc  
> SNARF weaks.doc
> SNARF posix.doc
> SNARF net_db.doc
> SNARF socket.doc
> SNARF regex-posix.doc
> CCLD libguile-2.0.la
> Undefined symbols for architecture x86_64:
> "_clock_getcpuclockid", referenced from:
> _scm_init_stime in libguile_2.0_la-stime.o
> ld: symbol(s) not found for architecture x86_64
> clang: error: linker command failed with exit code 1 (use -v to see 
> invocation)
> make[3]: *** [libguile-2.0.la] Error 1
> make[2]: *** [all] Error 2
> make[1]: *** [all-recursive] Error 1
> make: *** [all] Error 2
> ### execution of /tmp/fink.TSOln failed, exit code 2
> ### execution of /tmp/fink.pJfKW failed, exit code 2
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-guile20-2.0.11-3
> (Reading database ... 47795 files and directories currently installed.)
> Removing fink-buildlock-guile20-2.0.11-3 ...
> Failed: phase compiling: guile20-2.0.11-3 failed
> 
> ...
> 
> Package manager version: 0.40.99.git
> Distribution version: selfupdate-rsync Mon Aug 15 07:53:49 2016, 10.12, x86_64
> Trees: local/main stable/main
> Xcode.app: 8.0
> Xcode command-line tools: 8.0.0.0.1.1470584367
> Max. Fink build jobs: 4
> 
> 
> —
> 
> Kevin H. Gardner, Ph.D.
> kevin.gard...@asrc.cuny.edu
> 
> 

Would you mind trying the update from 
https://sourceforge.net/p/fink/package-submissions/4724/ 
<https://sourceforge.net/p/fink/package-submissions/4724/> ?  That should work 
with Xcode 8.  To do that, you would download guile20.info 
<http://guile20.info/> from that page and put it in 
/sw/fink/dists/local/main/finkinfo .
Then let us know if that works for you.

-- 
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Re: [Fink-users] "fink scanpackages" hangs at "0% [Working]"

[Alexander Hansen]

> On Aug 10, 2016, at 17:48, Ben Abbott <bpabb...@mac.com> wrote:
> 
>> On Aug 10, 2016, at 8:39 PM, Alexander Hansen <alexanderk.han...@gmail.com> 
>> wrote:
>> 
>>> On Aug 10, 2016, at 17:38, Ben Abbott <bpabb...@mac.com> wrote:
>>> 
>>>> On Aug 10, 2016, at 8:25 PM, Alexander Hansen 
>>>> <alexanderk.han...@gmail.com> wrote:
>>>> 
>>>>> On Aug 10, 2016, at 17:21, Ben Abbott <bpabb...@mac.com> wrote:
>>>>> 
>>>>> $ fink scanpackages
>>>>> Updating the list of locally available binary packages.
>>>>> Scanning dists/local/main/binary-darwin-x86_64
>>>>> Scanning dists/stable/main/binary-darwin-x86_64
>>>>> Scanning dists/stable/crypto/binary-darwin-x86_64
>>>>> Scanning dists/local/injected/binary-darwin-x86_64
>>>>> Downloading the indexes of available packages in the binary distribution.
>>>>> /sw/bin/apt-get-lockwait update
>>>>> 0% [Working]
>>>>> 
>>>>> Any ideas?
>>>>> 
>>>>> Package manager version: 0.39.3
>>>>> 
>>>>> Mac OS 10.11.6
>>>>> 
>>>>> Ben
>>>> 
>>>> We’ve had scattered reports in the past, but I’ve never been able to 
>>>> reproduce them.  From just now:
>>>> 
>>>> Downloading the indexes of available packages in the binary distribution.
>>>> /sw/bin/apt-get-lockwait update
>>>> Get:1 http://bindist.finkmirrors.net stable/main Packages [1412kB]
>>>> Get:2 http://bindist.finkmirrors.net stable/main Release [85B]
>>>> Fetched 1412kB in 1s (885kB/s)
>>> 
>>> So I’m in virgin territory? Shall I try to install over my existing fink?
>>> 
>>> sudo dpkg -i fink_0.39.4-101_darwin-x86_64.deb
>>> 
>>> Ben
>> 
>> I don’t think that will solve the issue, but go ahead.
>> 
>> —akh
> 
> hmmm, apparently I’m a noob. I found fink-0.39.4.tar.gz, but don’t see where 
> to get fink_0.39.4-101_darwin-x86_64.
> 
> Ben

Nah, it’s just not especially visible when the binary distribution isn’t 
working on a system. :-)

http://bindist.finkmirrors.net/10.11/dists/stable/main/binary-darwin-x86_64/base/fink_0.39.4-101_darwin-x86_64.deb

—alex
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Re: [Fink-users] "fink scanpackages" hangs at "0% [Working]"

[Alexander Hansen]

> On Aug 10, 2016, at 17:38, Ben Abbott <bpabb...@mac.com> wrote:
> 
>> On Aug 10, 2016, at 8:25 PM, Alexander Hansen <alexanderk.han...@gmail.com> 
>> wrote:
>> 
>>> On Aug 10, 2016, at 17:21, Ben Abbott <bpabb...@mac.com> wrote:
>>> 
>>> $ fink scanpackages
>>> Updating the list of locally available binary packages.
>>> Scanning dists/local/main/binary-darwin-x86_64
>>> Scanning dists/stable/main/binary-darwin-x86_64
>>> Scanning dists/stable/crypto/binary-darwin-x86_64
>>> Scanning dists/local/injected/binary-darwin-x86_64
>>> Downloading the indexes of available packages in the binary distribution.
>>> /sw/bin/apt-get-lockwait update
>>> 0% [Working]
>>> 
>>> Any ideas?
>>> 
>>> Package manager version: 0.39.3
>>> 
>>> Mac OS 10.11.6
>>> 
>>> Ben
>> 
>> We’ve had scattered reports in the past, but I’ve never been able to 
>> reproduce them.  From just now:
>> 
>> Downloading the indexes of available packages in the binary distribution.
>> /sw/bin/apt-get-lockwait update
>> Get:1 http://bindist.finkmirrors.net stable/main Packages [1412kB]
>> Get:2 http://bindist.finkmirrors.net stable/main Release [85B]
>> Fetched 1412kB in 1s (885kB/s)
> 
> So I’m in virgin territory? Shall I try to install over my existing fink?
> 
>   sudo dpkg -i fink_0.39.4-101_darwin-x86_64.deb
> 
> Ben

I don’t think that will solve the issue, but go ahead.

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patterns at an interface-level. Reveals which users, apps, and protocols are 
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Re: [Fink-users] "fink scanpackages" hangs at "0% [Working]"

[Alexander Hansen]

> On Aug 10, 2016, at 17:21, Ben Abbott <bpabb...@mac.com> wrote:
> 
> $ fink scanpackages
> Updating the list of locally available binary packages.
> Scanning dists/local/main/binary-darwin-x86_64
> Scanning dists/stable/main/binary-darwin-x86_64
> Scanning dists/stable/crypto/binary-darwin-x86_64
> Scanning dists/local/injected/binary-darwin-x86_64
> Downloading the indexes of available packages in the binary distribution.
> /sw/bin/apt-get-lockwait update
> 0% [Working]
> 
> Any ideas?
> 
> Package manager version: 0.39.3
> 
> Mac OS 10.11.6
> 
> Ben

We’ve had scattered reports in the past, but I’ve never been able to reproduce 
them.  From just now:

Downloading the indexes of available packages in the binary distribution.
/sw/bin/apt-get-lockwait update
Get:1 http://bindist.finkmirrors.net stable/main Packages [1412kB]
Get:2 http://bindist.finkmirrors.net stable/main Release [85B]
Fetched 1412kB in 1s (885kB/s)

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


--
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patterns at an interface-level. Reveals which users, apps, and protocols are 
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Re: [Fink-users] glitz-0.5.6 build error

[Alexander Hansen]

> On Aug 10, 2016, at 00:18, Martin Costabel <costa...@wanadoo.fr> wrote:
> 
> On 10/08/16 01:07, Barnes, Peter D. wrote:
>> 
> []
>> MacOS X:~$ ls -l /opt/X11/include
>> total 88
>> drwxr-xr-x   22 rootwheel748 Jun 17 21:22 GL/
>> drwxr-xr-x6 rootwheel204 Jun 17 21:22 GLES/
>> 
> 
> Is this really all there is in /opt/X11/include? If you don't have a 
> fully populated /opt/X11/include/X11/ directory, then it is not 
> surprising that glitz thinks that you don't have any X headers.
> 
> -- 
> Martin
> 

Though it looks like Peter took just the top of the list, based on “total 88”, 
which does look correct.

Try editing /sw/fink/dists/stable/main/finkinfo/graphics/glitz.info  and adding

 --x-includes=/opt/X11/include --x-libraries=/opt/X11/lib

to the ConfigureParams.  The current glitz packaging doesn’t do that because it 
probably was last touched when we still needed to support having Apple’s X11 in 
/usr/X11 on 10.7.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


--
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patterns at an interface-level. Reveals which users, apps, and protocols are 
consuming the most bandwidth. Provides multi-vendor support for NetFlow, 
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Re: [Fink-users] glitz-0.5.6 build error

[Alexander Hansen]

> On Aug 9, 2016, at 16:07, Barnes, Peter D. <barne...@llnl.gov> wrote:
> 
> 
>> On Aug 9, 2016, at 3:58 PM, Alexander Hansen <alexanderk.han...@gmail.com 
>> <mailto:alexanderk.han...@gmail.com>> wrote:
>> 
>> 
>>> On Aug 9, 2016, at 15:25, Barnes, Peter D. <barne...@llnl.gov 
>>> <mailto:barne...@llnl.gov>> wrote:
>>> 
>>> 
>>>> On Aug 9, 2016, at 3:19 PM, Alexander Hansen <alexanderk.han...@gmail.com 
>>>> <mailto:alexanderk.han...@gmail.com>> wrote:
>>>> 
>>>>> On Aug 9, 2016, at 15:03, Barnes, Peter D. <barne...@llnl.gov 
>>>>> <mailto:barne...@llnl.gov>> wrote:
>>>>> 
>>>>> Hello Folks,
>>>>> 
>>>>> I can’t build glitz-0.5.6 successfully:
>>>>> 
>>>>>> Making all in glx
>>>>>> if /bin/sh ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. 
>>>>>> -I. -I../.. -I../../src -I../../src -g -O2 -Wall -Wpointer-arith 
>>>>>> -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations 
>>>>>> -Wnested-externs -fno-strict-aliasing -MT glitz_glx_drawable.lo -MD -MP 
>>>>>> -MF ".deps/glitz_glx_drawable.Tpo" -c -o glitz_glx_drawable.lo 
>>>>>> glitz_glx_drawable.c; \
>>>>>> then mv -f ".deps/glitz_glx_drawable.Tpo" 
>>>>>> ".deps/glitz_glx_drawable.Plo"; else rm -f 
>>>>>> ".deps/glitz_glx_drawable.Tpo"; exit 1; fi
>>>>>> mkdir .libs
>>>>>> gcc -DHAVE_CONFIG_H -I. -I. -I../.. -I../../src -I../../src -g -O2 -Wall 
>>>>>> -Wpointer-arith -Wstrict-prototypes -Wmissing-prototypes 
>>>>>> -Wmissing-declarations -Wnested-externs -fno-strict-aliasing -MT 
>>>>>> glitz_glx_drawable.lo -MD -MP -MF .deps/glitz_glx_drawable.Tpo -c 
>>>>>> glitz_glx_drawable.c  -fno-common -DPIC -o .libs/glitz_glx_drawable.o
>>>>>> In file included from glitz_glx_drawable.c:30:
>>>>>> ./glitz_glxint.h:34:10: fatal error: 'GL/gl.h' file not found
>>>>>> #include 
>>>>>> ^
>>>>>> 1 error generated.
>>>>> 
>>>>> 
>>>>> I’ve run fink selfupdate, but that didn’t help.
>>>>> 
>>>>> System info:
>>>>> Package manager version: 0.39.4
>>>>> Distribution version: selfupdate-rsync Tue Aug  9 14:31:12 2016, 10.10, 
>>>>> x86_64
>>>>> Trees: local/main stable/main stable/crypto
>>>>> Xcode.app: 7.2.1
>>>>> Xcode command-line tools: 7.2.0.0.1.1447826929
>>>>> glitz-0.5.6-34 is set to build with only one job.
>>>>> 
>>>>> TIA for your help,
>>>>> Peter
>>>>> __
>>>> 
>>>> (please don’t crosspost, since more or less the same people actually read 
>>>> and respond to all of our lists)
>>> 
>>> Apologies.  The Fink error chatter asks to cross post:
>>> 
>>>>  If not, ask on one (not both, please) of
>>>> these mailing lists:
>> 
>> “not both, please” ^ 
> 
> Whoops.  Apologies again.
> 
>>>> What does the "checking for X…” line near the beginning of the build 
>>>> output say?
>>> 
>>> 
>> 
>> 
>> 
>>>> checking for X... libraries /usr/X11/lib, headers 
>> 
>> 
>> 
>> 
>> The build system appears not to be finding X11 headers.  What do you get from
>> 
>> ls -l /usr/X11
>> ls -ld /usr/X11/include
>> ls -ld /opt/X11/include
> 
> MacOS X:~$ ls -l /usr/X11
> lrwxr-xr-x  1 root  wheel  8 Jun 23  2015 /usr/X11@ -> /opt/X11
> MacOS X:~$ ls -ld /usr/X11/include
> drwxr-xr-x  19 root  wheel  646 Jun 17 21:22 /usr/X11/include/
> MacOS X:~$ ls -ld /opt/X11/include
> drwxr-xr-x  19 root  wheel  646 Jun 17 21:22 /opt/X11/include/
> MacOS X:~$ ls -l /opt/X11/include
> total 88
> drwxr-xr-x   22 rootwheel748 Jun 17 21:22 GL/
> drwxr-xr-x6 rootwheel204 Jun 17 21:22 GLES/
> 
> Peter
> _
> Dr. Peter D. Barnes, Jr.  NACS Division
> Lawrence Livermore National Laboratory
> Physical and Life Sciences
> 7000 East Avenue, L-50  email:  pdbar...@llnl.gov <mailto:pdbar...@llnl.gov>
> P. O. Box 808 Voice:  (925) 422-3384
> Livermore, California 94550
> Fax:(925) 423-3371
> 
> 

Hmm.  How about “ls -l /usr/X11/include/GL/gl.h” ?

—akh--
What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic
patterns at an interface-level. Reveals which users, apps, and protocols are 
consuming the most bandwidth. Provides multi-vendor support for NetFlow, 
J-Flow, sFlow and other flows. Make informed decisions using capacity 
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Re: [Fink-users] glitz-0.5.6 build error

[Alexander Hansen]

> On Aug 9, 2016, at 15:25, Barnes, Peter D. <barne...@llnl.gov> wrote:
> 
> 
>> On Aug 9, 2016, at 3:19 PM, Alexander Hansen <alexanderk.han...@gmail.com 
>> <mailto:alexanderk.han...@gmail.com>> wrote:
>> 
>>> On Aug 9, 2016, at 15:03, Barnes, Peter D. <barne...@llnl.gov 
>>> <mailto:barne...@llnl.gov>> wrote:
>>> 
>>> Hello Folks,
>>> 
>>> I can’t build glitz-0.5.6 successfully:
>>> 
>>>> Making all in glx
>>>> if /bin/sh ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. 
>>>> -I. -I../.. -I../../src -I../../src -g -O2 -Wall -Wpointer-arith 
>>>> -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations 
>>>> -Wnested-externs -fno-strict-aliasing -MT glitz_glx_drawable.lo -MD -MP 
>>>> -MF ".deps/glitz_glx_drawable.Tpo" -c -o glitz_glx_drawable.lo 
>>>> glitz_glx_drawable.c; \
>>>> then mv -f ".deps/glitz_glx_drawable.Tpo" ".deps/glitz_glx_drawable.Plo"; 
>>>> else rm -f ".deps/glitz_glx_drawable.Tpo"; exit 1; fi
>>>> mkdir .libs
>>>> gcc -DHAVE_CONFIG_H -I. -I. -I../.. -I../../src -I../../src -g -O2 -Wall 
>>>> -Wpointer-arith -Wstrict-prototypes -Wmissing-prototypes 
>>>> -Wmissing-declarations -Wnested-externs -fno-strict-aliasing -MT 
>>>> glitz_glx_drawable.lo -MD -MP -MF .deps/glitz_glx_drawable.Tpo -c 
>>>> glitz_glx_drawable.c  -fno-common -DPIC -o .libs/glitz_glx_drawable.o
>>>> In file included from glitz_glx_drawable.c:30:
>>>> ./glitz_glxint.h:34:10: fatal error: 'GL/gl.h' file not found
>>>> #include 
>>>> ^
>>>> 1 error generated.
>>> 
>>> 
>>> I’ve run fink selfupdate, but that didn’t help.
>>> 
>>> System info:
>>> Package manager version: 0.39.4
>>> Distribution version: selfupdate-rsync Tue Aug  9 14:31:12 2016, 10.10, 
>>> x86_64
>>> Trees: local/main stable/main stable/crypto
>>> Xcode.app: 7.2.1
>>> Xcode command-line tools: 7.2.0.0.1.1447826929
>>> glitz-0.5.6-34 is set to build with only one job.
>>> 
>>> TIA for your help,
>>> Peter
>>> __
>> 
>> (please don’t crosspost, since more or less the same people actually read 
>> and respond to all of our lists)
> 
> Apologies.  The Fink error chatter asks to cross post:
> 
>> If you continue to have issues, please check to see if the FAQ on Fink's 
>> website solves the problem.  If not, ask on one (not both, please) of
>> these mailing lists:

“not both, please” ^ 

>> 
>> The Fink Users List <fink-users@lists.sourceforge.net 
>> <mailto:fink-users@lists.sourceforge.net>>
>> The Fink Beginners List <fink-beginn...@lists.sourceforge.net 
>> <mailto:fink-beginn...@lists.sourceforge.net>>,
>> 
>> with a carbon copy to the maintainer:
>> 
>> Benjamin Reed <gl...@fink.raccoonfink.com 
>> <mailto:gl...@fink.raccoonfink.com>>
> 
> 
>> What does the "checking for X…” line near the beginning of the build output 
>> say?
> 
> 



>> checking for X... libraries /usr/X11/lib, headers 



> 
> Then make starts.
> Peter
> _
> Dr. Peter D. Barnes, Jr.  NACS Division
> Lawrence Livermore National Laboratory
> Physical and Life Sciences
> 7000 East Avenue, L-50  email:  pdbar...@llnl.gov <mailto:pdbar...@llnl.gov>
> P. O. Box 808 Voice:  (925) 422-3384
> Livermore, California 94550
> Fax:(925) 423-3371
> 

The build system appears not to be finding X11 headers.  What do you get from

ls -l /usr/X11
ls -ld /usr/X11/include
ls -ld /opt/X11/include

?

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

--
What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic
patterns at an interface-level. Reveals which users, apps, and protocols are 
consuming the most bandwidth. Provides multi-vendor support for NetFlow, 
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Re: [Fink-users] Cannot install libopenjp2.7 - CMake failure

[Alexander Hansen]

> On Aug 8, 2016, at 08:26, Bollinger, John C <john.bollin...@stjude.org> wrote:
> 
> Dear Fink Users,
>  
> Pursuant to Fink’s instructions, having exhausted its other suggestions, I am 
> asking here for help with installing the libopenjp2.7 package on Yosemite.  
> The build is currently failing for me with a CMake error at the configuration 
> step.  Here is example output:
>  
> 
>  
> The following package will be installed or updated:
> libopenjp2.7
> The following additional package will be installed:
> libopenjp2.7-shlibs
> Default answer will be chosen in 60 seconds...
> Do you want to continue? [Y/n] 
> Setting runtime build-lock...
> dpkg-deb -b 
> /sw/src/fink.build/root-fink-buildlock-libopenjp2.7-shlibs-2.1.1-1 
> /sw/src/fink.build
> dpkg-deb: building package `fink-buildlock-libopenjp2.7-shlibs-2.1.1-1' in 
> `/sw/src/fink.build/fink-buildlock-libopenjp2.7-shlibs-2.1.1-1_2016.08.08-08.57.46_darwin-x86_64.deb'.
> Installing build-lock package...
> /sw/bin/dpkg-lockwait -i 
> /sw/src/fink.build/fink-buildlock-libopenjp2.7-shlibs-2.1.1-1_2016.08.08-08.57.46_darwin-x86_64.deb
> Selecting previously deselected package 
> fink-buildlock-libopenjp2.7-shlibs-2.1.1-1.
> (Reading database ... 120669 files and directories currently installed.)
> Unpacking fink-buildlock-libopenjp2.7-shlibs-2.1.1-1 (from 
> .../fink-buildlock-libopenjp2.7-shlibs-2.1.1-1_2016.08.08-08.57.46_darwin-x86_64.deb)
>  ...
> Setting up fink-buildlock-libopenjp2.7-shlibs-2.1.1-1 (2016.08.08-08.57.46) 
> ...
>  
> sudo -u fink-bld [ENV] sh -c /tmp/fink.ZyruP
> env LANG=C LC_ALL=C /sw/bin/tar  --no-same-owner --no-same-permissions -xf 
> /sw/src/openjpeg-2.1.1.tar.gz
> sudo -u fink-bld [ENV] sh -c /tmp/fink.gYe_u
> cmake -DCMAKE_INSTALL_PREFIX=/sw -DCMAKE_C_FLAGS:STRING=-MD .
> -- The C compiler identification is AppleClang 7.0.0.7000176
> CMake Error at /sw/share/cmake-3.6/Modules/Platform/Darwin.cmake:76 (message):
>   CMAKE_OSX_DEPLOYMENT_TARGET is '10.10' but CMAKE_OSX_SYSROOT:
>  
>""
>  
>   is not set to a MacOSX SDK with a recognized version.  Either set
>   CMAKE_OSX_SYSROOT to a valid SDK or set CMAKE_OSX_DEPLOYMENT_TARGET to
>   empty.
> Call Stack (most recent call first):
>   /sw/share/cmake-3.6/Modules/CMakeSystemSpecificInformation.cmake:36 
> (include)
>   CMakeLists.txt:27 (project)
>  
>  
> -- Configuring incomplete, errors occurred!
> See also 
> "/sw/src/fink.build/libopenjp2.7-shlibs-2.1.1-1/openjpeg-2.1.1/CMakeFiles/CMakeOutput.log".
> See also 
> "/sw/src/fink.build/libopenjp2.7-shlibs-2.1.1-1/openjpeg-2.1.1/CMakeFiles/CMakeError.log".
> ### execution of cmake failed, exit code 1
> ### execution of /tmp/fink.gYe_u failed, exit code 1
> Removing runtime build-lock...
> Removing build-lock package...
> /sw/bin/dpkg-lockwait -r fink-buildlock-libopenjp2.7-shlibs-2.1.1-1
> (Reading database ... 120670 files and directories currently installed.)
> Removing fink-buildlock-libopenjp2.7-shlibs-2.1.1-1 ...
> Failed: phase compiling: libopenjp2.7-shlibs-2.1.1-1 failed
>  
> 
>  
> (boilerplate and maintainer e-mail elided)
>  
> Mine is a fresh install of the latest Fink, up to date as of this morning, 
> with all packages so far installed updated to their latest versions.  I am 
> using the Xcode 7.1 command-line tools (for 10.10) underneath.  This is 
> reflected in the following system information that Fink directs me to include:
>  
> Package manager version: 0.39.4
> Distribution version: selfupdate-cvs Mon Aug  8 08:57:04 2016, 10.10, x86_64
> Trees: local/main stable/main
> No recognized Xcode.app installed
> Xcode command-line tools: 7.1.0.0.1.1444952191
> Max. Fink build jobs:  1
>  
>  
> It looks like this may be similar to the error reported in 
> https://sourceforge.net/p/fink/mailman/message/34848199/ 
> <https://sourceforge.net/p/fink/mailman/message/34848199/>, but that issue 
> was resolved by the maintainer rolling out a package update, so it doesn’t 
> seem to provide anything I can use directly.  Is there a way I can work 
> around this?
>  
>  
> Thanks,
>  
> John Bollinger
>  
> --
> John C. Bollinger
> Computing and X-Ray Scientist
> Department of Structural Biology
> St. Jude Children's Research Hospital
>  
>  
> 

The build appears to want one of the SDKs from Xcode.app.  Installing Xcode 7.1 
to match your command-line tools could be a quick workaround.

If this is indeed a requirement, libopenjp2.7 should probably declare this in 
its build dependencies.  On the other hand, it seems like some upstreams don’t 
really understand when to use the SDK and when not to, and it might be possible 
to adjust the build proce

Re: [Fink-users] I need npm, which fink package to install?

[Alexander Hansen]

> On Jul 20, 2016, at 08:44, Alan  wrote:
> 
> Thanks Alexander,
> 
> So no 'npm' in Fink, right?
> 

Right.  As best as I can tell, we’ve never had it. 




--
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Re: [Fink-users] I need npm, which fink package to install?

[Alexander Hansen]

> On Jul 20, 2016, at 07:57, Alan  wrote:
> 
> I see several node...
> 
> Which one would contain npm?
> 
> Thanks,
> 
> Alan
> 
> -- 
> Alan Wilter SOUSA da SILVA, DSc
> Senior Bioinformatician, UniProt
> European Bioinformatics Institute (EMBL-EBI)
> European Molecular Biology Laboratory
> Wellcome Trust Genome Campus
> Hinxton
> Cambridge CB10 1SD
> United Kingdom
> Tel: +44 (0)1223 494588
> ———

None of them.


--
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consuming the most bandwidth. Provides multi-vendor support for NetFlow, 
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Re: [Fink-users] librsvg2 fails to build

[Alexander Hansen]

> On Jul 8, 2016, at 12:32, Ben Abbott <bpabb...@mac.com> wrote:
> 
> On Jul 7, 2016, at 17:37, Ben Abbott <bpabb...@mac.com 
> <mailto:bpabb...@mac.com>> wrote:
> 
>> On Jul 7, 2016, at 14:45, Ben Abbott <bpabb...@mac.com 
>> <mailto:bpabb...@mac.com>> wrote:
>> 
>>> On Jul 7, 2016, at 14:21, Alexander Hansen <alexanderk.han...@gmail.com 
>>> <mailto:alexanderk.han...@gmail.com>> wrote:
>>>> 
>>>>> On Jul 7, 2016, at 10:23, Ben Abbott <bpabb...@mac.com 
>>>>> <mailto:bpabb...@mac.com>> wrote:
>>>>> 
>>>>>>> On Jul 7, 2016, at 10:37, Alexander Hansen <alexanderk.han...@gmail.com 
>>>>>>> <mailto:alexanderk.han...@gmail.com>> wrote:
>>>>>>> 
>>>>>>> On Jul 7, 2016, at 04:32, Ben Abbott <bpabb...@mac.com 
>>>>>>> <mailto:bpabb...@mac.com>> wrote:
>>>>>>> 
>>>>>>> Mac OS 10.10.5
>>>>>>> MacBook Pro (15in Early 2011)
>>>>>>> Processor 2.2 GHz Intel Core i7
>>>>>>> 
>>>>>>> Also include the following system information:
>>>>>>> Package manager version: 0.39.3
>>>>>>> Distribution version: selfupdate-rsync Thu Jul  7 07:05:50 2016, 10.10, 
>>>>>>> x86_64
>>>>>>> Trees: local/main stable/main stable/crypto
>>>>>>> Xcode.app: 7.2.1
>>>>>>> Xcode command-line tools: 7.2.0.0.1.1447826929
>>>>>>> Max. Fink build jobs:  4
>>>>>>> 
>>>>>>> CCLD   svg_loader.la
>>>>>>> libtool: link: warning: `/sw/lib/libpangoft2-1.0.la' seems to be moved
>>>>>>> libtool: link: warning: `/sw/lib/libpangocairo-1.0.la' seems to be moved
>>>>>>> libtool: link: warning: `/sw/lib/libpango-1.0.la' seems to be moved
>>>>>>> libtool: link: warning: `/sw/lib/libfontconfig.la' seems to be moved
>>>>>>> libtool: link: warning: `/sw/lib/libfreetype.la' seems to be moved
>>>>>>> clang: warning: argument unused during compilation: '-pthread'
>>>>>>> ld: file not found: @rpath/libclang_rt.asan_osx_dynamic.dylib for 
>>>>>>> architecture x86_64
>>>>>>> clang: error: linker command failed with exit code 1 (use -v to see 
>>>>>>> invocation)
>>>>>>> Makefile:356: recipe for target 'svg_loader.la' failed
>>>>>>> make[2]: *** [svg_loader.la] Error 1
>>>>>>> make[2]: Leaving directory 
>>>>>>> '/sw/src/fink.build/librsvg2-2.26.3-4/librsvg-2.26.3/gdk-pixbuf-loader'
>>>>>>> Makefile:819: recipe for target 'all-recursive' failed
>>>>>>> make[1]: *** [all-recursive] Error 1
>>>>>>> make[1]: Leaving directory 
>>>>>>> '/sw/src/fink.build/librsvg2-2.26.3-4/librsvg-2.26.3'
>>>>>>> Makefile:483: recipe for target 'all' failed
>>>>>>> make: *** [all] Error 2
>>>>>>> ### execution of make failed, exit code 2
>>>>>>> ### execution of /tmp/fink.X9CAF failed, exit code 2
>>>>>>> Removing runtime build-lock...
>>>>>>> Removing build-lock package...
>>>>>>> /sw/bin/dpkg-lockwait -r fink-buildlock-librsvg2-2.26.3-4
>>>>>>> (Reading database ... 260728 files and directories currently installed.)
>>>>>>> Removing fink-buildlock-librsvg2-2.26.3-4 ...
>>>>>>> Failed: phase compiling: librsvg2-2.26.3-4 failed
>>>>>>> 
>>>>>>> Ben
>>>>>> 
>>>>>> I don’t reproduce this on 10.11 with Xcode 7.3.  You aren’t using a 
>>>>>> non-Xcode clang or ld, by any chance?  I wasn’t able to trigger the 
>>>>>> build failure even by moving 
>>>>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/7.3.0/lib/darwin/libclang_rt.asan_osx_dynamic.dylib
>>>>>>  out of the way.
>>>>> 
>>>>> My mac mini running 10.11 also worked. I've been slow upgrading my 
>>>>> notebook. Perhaps I should just upgrade to 10.11.
>>>>> 
>>>>> I'll run a follow the instructions on Finks homepage, backup, and then 
>>>>> upgrade.
>>>>> 
>>>>> If you'd like me to try something first, let me know.
>>>>> 
>>>>> Ben
>>>> 
>>>> Maybe reinstall the Xcode command line tools or update them.  That’s 
>>>> semi-easy.  And even before that, check for 
>>>> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/7.2.0/lib/darwin/libclang_rt.asan_osx_dynamic.dylib
>>>> 
>>>> —akh
>>> 
>>> Ah-ha!
>>> 
>>> My Xcode is 7.0.2, but the asan dylib is there.
>> 
>> Oops. My clang is 7.0.2. My Xcode is 7.2.1, and I have the command line 
>> tools for 7.2.1 selected.
> 
> I've installed 10.11 and now have copies of both Xcode 7.2.1 and 7.3.1. Using 
> 7.2.1 I'm able to build librsvg2
> 
> Ben
> 

Thanks for the followup.  I can try 10.10/Xcode 7.x here, since that’s a 
problematic combination on other packages.

—akh

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Re: [Fink-users] fink selfupdate failure with el capitan 10.11.5

[Alexander Hansen]

ame mirror
> (3)Retry another mirror from your country
> (4)Retry another mirror
> 
> Default answer will be chosen in 120 seconds...
> How do you want to proceed? [3] 1
> No mirror worked. This seems unusual, please submit a short summary of this 
> event to mirr...@finkmirrors.net <mailto:mirr...@finkmirrors.net>
>  Thank you
> 
> Could you please help out?
> 
> All the best and thanks,
> Eduardo Pestana
> 

Was this an attempt to update your Fink tree in-place from 10.6.8 to 10.11?  We 
didn’t even support updating in place from 10.6.x to _10.7_, much less 10.6.x 
to 10.11.

If you did that, check 
http://www.finkproject.org/download/10.11-upgrade.php?phpLang=en under the 
heading “10.8 and earlier to 10.11”.  

Otherwise, I don’t reproduce your rsync issue on my own 10.11 system.

-- 
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Fink User Liaison

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Re: [Fink-users] Xcode 8

[Alexander Hansen]

> On Jun 15, 2016, at 15:36, Roy Mendelssohn - NOAA Federal 
> <roy.mendelss...@noaa.gov> wrote:
> 
> I have access to Xcode 8 but am wondering if I get that if I will fry my Fink 
> libraries.  Xcode 8 would be more of a toy right now,  I need my Fink 
> libraries.
> 
> Thanks,
> 
> -Roy
> 
> 
> **
> "The contents of this message do not reflect any position of the U.S. 
> Government or NOAA."
> **
> Roy Mendelssohn
> Supervisory Operations Research Analyst
> NOAA/NMFS
> Environmental Research Division
> Southwest Fisheries Science Center
> ***Note new address and phone***
> 110 Shaffer Road
> Santa Cruz, CA 95060
> Phone: (831)-420-3666
> Fax: (831) 420-3980
> e-mail: roy.mendelss...@noaa.gov www: http://www.pfeg.noaa.gov/
> 
> "Old age and treachery will overcome youth and skill."
> "From those who have been given much, much will be expected" 
> "the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
> 

Theoretically that shouldn’t break anything that you already have installed 
(hopefully I’m not wrong in that).  The main thing to worry about would be 
failures when building new (to you) and updated packages—which again should 
leave your existing packages installed and usable.

Theoretically.



-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Failed: can't install package wxmaxima-mac-16.04.0-1

[Alexander Hansen]

> On Jun 11, 2016, at 03:36, Sean Lake <odysseus9...@gmail.com> wrote:
> 
> I just tried using dpkg to remove wxmaxima-mac, and this is what it said:
> 
> sudo dpkg --purge wxmaxima-mac
> /sw/bin/dpkg: error processing wxmaxima-mac (--purge):
> Package is in a very bad inconsistent state - you should
> reinstall it before attempting a removal.
> Errors were encountered while processing:
> wxmaxima-mac
> 
> So, I give up. I'm going to erase the Fink install and start from scratch, 
> making sure to remove that directory in /Applications/
> 
> Could you add a configuration option to keep fink confined to its install 
> dir? I like the convenience of being able to uninstall by erasing /sw/. If 
> that's not possible, then some sort of "uninstall all of fink" command that 
> handles all of the package removal scripts automatically would be helpful.
> 
> Thanks,
> Sean Lake
> 

No, we probably won’t be doing a configuration option like that.  
/Applications/Fink contains just a bunch of symlinks to the real app bundle 
folders in /sw/Applications, to make it easier for users to run those.  At 
best, having a dangling symlink in /Applications/Fink will prevent a package 
from being installed because the post install scripts won’t overwrite such a 
symlink.

Your errors were with _real_ files in /sw:  "rm: 
/sw/Applications/wxMaxima.app/Contents/PkgInfo: No such file or directory"
dpkg: warning - old pre-removal script returned error exit status 1

I’m not sure what caused that, since the current pre-removal script for 
wxmaxima* looks like:

$ cat /sw/var/lib/dpkg/info/wxmaxima-mac.prerm
#!/bin/sh
# prerm script for package wxmaxima-mac, auto-created by fink

set -e


# generated from InfoDocs directive
if [ -f /sw/share/info/dir ]; then
/sw/sbin/install-info --infodir=/sw/share/info --remove wxmaxima.info
fi

exit 0

I.e., no mention of /sw/Applications/wxMaxima.app/Contents/PkgInfo.  I’d have 
been curious to see what the contents of yours was, but I guess it’s too late 
now.  Removing the “set -e” declaration in one of these scripts can be a way 
around stuck installs/removes, because the script won’t throw an error when a 
command fails.

A “remove all of Fink” script would be “sudo rm -rf /sw /Applications/Fink”. 

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] libcurl4 installation failure

[Alexander Hansen]

> On Jun 9, 2016, at 06:08, James Kolata <jkol...@nd.edu> wrote:
> 
> The following package will be installed or updated:
>  libcurl4
> The following additional package will be installed:
>  libcurl4-shlibs
> The following package might be temporarily removed:
>  openldap24-dev
> Do you want to continue? [Y/n] (assuming default)
> The following packages must be temporarily removed, but there are no .debs to
> restore them from:
>   openldap24-dev
> Exiting with failure.
> 
> 
> [escs-mbp:~] jkolata1% fink -V
> Package manager version: 0.39.3
> Distribution version: selfupdate-rsync Thu Jun  9 08:59:12 2016, 10.11, x86_64
> Trees: local/main stable/main local/injected
>  
> OSX version 10.11.5
> 
> Should I delete openldap24 and rebuild, or is there a better way?
> 
> JJ Kolata

You can manually remove it, or do “fink rebuild openldap24-dev” so that you 
will have a local .deb file to make the swap engine happy.
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Re: [Fink-users] xemacs stops working after XQuartz update

[Alexander Hansen]

> On Jun 2, 2016, at 07:56, Alexander Hansen <alexanderk.han...@gmail.com> 
> wrote:
> 
> 
>> On Jun 2, 2016, at 06:37, Andrea Cavalli <andrea.cava...@irb.usi.ch> wrote:
>> 
>> After update to XQuartz 2.7.9 (xorg-server 1.17.4)  Emacs 21.4 stopped 
>> working (Fink 0.39.3).
>> 
> 
> (More useful than the fink version would have been your OS version.)
> 
>> Error message: Error: attempt to add non-widget child Progress to parent 
>> clip-window which supports only widget
>> 
>> Any suggestion?
>> 
>> Thanks
>> Andrea
>> 
>> 
>> ---
>> Dr. Andrea Cavalli
>> Institute for Research in Biomedicine
>> Via Vincenzo Vela 6
>> CH-6500 Bellinzona
>> 
>> Email:   andrea.cava...@irb.usi.ch
>> 
>> Phone:  +41 (0)91  820 0303
>> 
>> http://www.open-almost.org
>> 
>> 
>> 
> 
> Someone reported this issue yesterday, but as yet we have been unable to 
> track down the source of the problem.  I don’t reproduce it on my 10.11 
> system with Xquartz-2.7.9.  
> 
> —akh

There was a report shortly after I sent my message that rebuilding libxaw3dxft 
(“fink rebuild libxaw3dxft”) solved the problem, so you might give that a try.

—akh


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Re: [Fink-users] [Fink-devel] XEmacs does not run withno longer works with XQuartz 2.7.9

[Alexander Hansen]

> On Jun 1, 2016, at 08:42, Stefan Bruda <ste...@bruda.ca> wrote:
> 
> Hello,
> 
> After the latest XQuartz update (to version 2.7.9) XEmacs refuses to
> run under X (but runs just fine in a terminal).  Here is how it fails:
> 
> < godel:~ > xemacs 
> Error: attempt to add non-widget child "*scratch*" to parent "Buffers" which 
> supports only widgets
> 
> To be on the safe side I did an selfupdate, update-all, and then
> rebuild XEmacs but the issue remains.
> 
> The environment is as follows:
> 
> < godel:~ > sw_vers 
> ProductName:  Mac OS X
> ProductVersion:   10.10.5
> BuildVersion: 14F1808
> < godel:~ > fink list xcode
> Information about 9387 packages read in 1 seconds.
> i   xcode7.2.0.0.1.1447  [virtual package representing the 
> developer tools]
> i   xcode.app7.2.1-1 [virtual package representing Xcode]
> 
> Advice is much appreciated.
> 
> Best regards,
> Stefan
> 
> -- 
> Stefan D. Bruda, PhD
> Professor of Computer Science
> Bishop's University 
> 2600 College St, Sherbrooke, Quebec J1M 1Z7, Canada
> Phone: +1-819-822-9600 x2374, Fax: +1-819-822-9661
> Web: <http://bruda.ca>, Email: <ste...@bruda.ca>
> PGP public key: <http://pgp.mit.edu:11371/pks/lookup?op=get=0xD5DD6092>
> * No HTML emails and proprietary attachments please <http://bruda.ca/ascii>
> * Quid latine dictum sit altum videtur
> 

Thanks for the report.  This is due to a compatibility break in libXt.

I’m still on Xquartz-2.7.8, so I have:

Fionna-3:crypto hansen$ otool -L /sw/bin/xemacs | grep Xt
/opt/X11/lib/libXt.6.dylib (compatibility version 7.0.0, current 
version 7.0.0)

Xquartz 2.7.9 introduced libXt.dylib -> libXt.7.dylib, and libXt.7.dylib is 
incompatible with some older windowing technologies.  

The xemacs build will need to be modified to to use /opt/X11/lib/libXt.6.dylib 
, which fortunately is still present for legacy compatibility.  
-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] Downloads stalling...

[Alexander Hansen]

> On May 31, 2016, at 10:29, Jess H. Brewer <j...@triumf.ca> wrote:
> 
> On 05/31/2016 08:47 AM, Alexander Hansen wrote:
>>>> 
>>>> 
>>>> One question on the login method:  is that a terminal logged in to a
>>>> root account, or accessed via “sudo -s” or “su”, etc. ?
>>>> 
>>>> —akh
>>> 
>>> # su -
>>> 
>>> (When I'm root, I want to stay root.  :-)
>>> 
>>> -- Jess
>> 
>> I don’t know if it will make a difference, but you might try setting
>> 
>> RootMethod: none
>> 
>> in /sw/etc/fink.conf if you haven’t done that already.—akh
> 
> It was already set.  Shall I try something different?
> 
> I seem to be able to "chip away" at updating from source: although just 
> running # fink update-all  fails after a few packages, it does update a 
> few -- less each time I run it -- until it fails immediately; then I 
> "manually" update a few from the list and try again.  Then update-all 
> gets a few more  I've done this before; eventually I get up to date 
> (or almost so) and then I seem to be able to go back to normal.  I 
> wonder if the failure on downloading binaries is due to some specific 
> package needing updating?
> 
> Cheers — Jess
> 

I’m honestly not sure.  What’s failing to download isn’t a particular package, 
though, but an index for all of the packages.  

Is it possible that you are happening upon updates which _aren’t_ in the binary 
distribution due to new versions/revisions, and therefore are being built from 
source?

—akh
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Re: [Fink-users] Downloads stalling...

[Alexander Hansen]

>> 
>> 
>> One question on the login method:  is that a terminal logged in to a
>> root account, or accessed via “sudo -s” or “su”, etc. ?
>> 
>> —akh
> 
> # su -
> 
> (When I'm root, I want to stay root.  :-)
> 
> -- Jess

I don’t know if it will make a difference, but you might try setting 

RootMethod: none

in /sw/etc/fink.conf if you haven’t done that already.—akh


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Re: [Fink-users] Downloads stalling...

[Alexander Hansen]

> On May 30, 2016, at 15:18, Jess H. Brewer <j...@triumf.ca> wrote:
> 
> On 2016-05-30 12:11 PM, Alexander Hansen wrote:
>>> On May 30, 2016, at 10:55, Jess H. Brewer <j...@triumf.ca> wrote:
>>> 
>>> Over the past week or two I've been running into stalls on downloading.
>>>  At first it was just at the stage of getting the new archives for
>>> update-all commands, then it got worse, possibly because each time I
>>> eventually had to CTRL-C out of the operation(s).  I tried deleting
>>> various lock files, touching same to recreate them, etc., but this had
>>> no apparent effect.  I tried fink fetch-missing to separate downloading
>>> from processing, and it seemed to work, but afterward nothing had
>>> changed.  I ran fink configure many times, trying different
>>> repositories, to no effect.  Finally I set verbosity to 4 and tried to
>>> run fink cleanup:
>>> __
>>> 
>>> # fink cleanup
>>> Scanning package description files..
>>> Information about 9161 packages read in 4 seconds.
>>> Collecting active source filenames...
>>> Obsolete sources deleted from /sw/src: 0
>>> 
>>> Scanning deb collection...
>>> Obsolete deb packages deleted from fink trees: 0
>>> 
>>> Obsolete symlinks deleted: 0
>>> 
>>> /sw/bin/apt-get-lockwait --option APT::Clean-Installed=false autoclean
>>> Reading Package Lists... Done
>>> Building Dependency Tree... Done
>>> Obsolete deb packages deleted from apt cache: 0
>>> 
>>> Updating the list of locally available binary packages.
>>> Downloading the indexes of available packages in the binary distribution.
>>> 0% [Working]
>>> _
>>> 
>>> ...and there it waits, forever (or at least 24 hrs) without change
>>> (still 0%).  So I'm dead in the water.  The old fink stuff still works,
>>> as far as I can tell, but I can't make any changes or updates.
>>> 
>>> This is probably something really simple and I'm going to come off
>>> looking like a noob, but... HELP!
>>> 
>> As far as I know we haven’t added a new binary distribution repository, so 
>> there’s really anything to reconfigure which will actually help in this 
>> case.  It works for me:
>> 
>> ...
>> Downloading the indexes of available packages in the binary distribution.
>> /sw/bin/apt-get-lockwait update
>> Hit http://bindist.finkmirrors.net stable/main Packages
>> Hit http://bindist.finkmirrors.net stable/main Release
>> Reading Package Lists... Done
>> Building Dependency Tree… Done
> 
> Nope.  Hangs as above.
> 
>> 
>> Maybe try running the command “sudo apt-get-lockwait update” manually to see 
>> if that works.  Also try “sudo apt-get update”—theoretically both should 
>> have the same behavior, but we might as well additional data.
> 
> All versions hang the same way.
> 
>> Also, what are the contents of your /sw/etc/apt/sources.list file?  
>> (Normally apt-get throws an error message promptly when there is a download 
>> error, however)
> 
> more /sw/etc/apt/sources.list
> # Local modifications should either go above this line, or at the end.
> #
> # Default APT sources configuration for Fink, written by the fink program
> 
> # Local package trees - packages built from source locally
> # NOTE: this is automatically kept in sync with the Trees: line in
> # /sw/etc/fink.conf
> # NOTE: run 'fink scanpackages' to update the corresponding Packages.gz 
> files
> deb file:/sw/fink local main
> deb file:/sw/fink stable main
> deb file:/sw/fink local injected
> deb file:/sw/fink unstable main
> 
> # Official binary distribution: download location for packages
> # from the latest release
> deb http://bindist.finkmirrors.net/10.11 
> <http://bindist.finkmirrors.net/10.11> stable main
> 
> # Put local modifications to this file below this line, or at the top.
> 
>> 
>> And what method are you using to give the fink tools administrative 
>> privileges?
> 
> I generally just run from a root terminal.
> 
>> 
>> Finally, what OS X version are you using?
> 
> El Capitan 10.11.15
> 
>> 
>> As a workaround to the immediate problem, you can use “fink configure” and 
>> shut off integration between fink and the binary distribution tools.  This 
>> will let you update, albeit always from source.
>> 
> That seems 

Re: [Fink-users] Downloads stalling...

[Alexander Hansen]

> On May 30, 2016, at 10:55, Jess H. Brewer <j...@triumf.ca> wrote:
> 
> Over the past week or two I've been running into stalls on downloading. 
>  At first it was just at the stage of getting the new archives for 
> update-all commands, then it got worse, possibly because each time I 
> eventually had to CTRL-C out of the operation(s).  I tried deleting 
> various lock files, touching same to recreate them, etc., but this had 
> no apparent effect.  I tried fink fetch-missing to separate downloading 
> from processing, and it seemed to work, but afterward nothing had 
> changed.  I ran fink configure many times, trying different 
> repositories, to no effect.  Finally I set verbosity to 4 and tried to 
> run fink cleanup:
> __
> 
> # fink cleanup
> Scanning package description files..
> Information about 9161 packages read in 4 seconds.
> Collecting active source filenames...
> Obsolete sources deleted from /sw/src: 0
> 
> Scanning deb collection...
> Obsolete deb packages deleted from fink trees: 0
> 
> Obsolete symlinks deleted: 0
> 
> /sw/bin/apt-get-lockwait --option APT::Clean-Installed=false autoclean
> Reading Package Lists... Done
> Building Dependency Tree... Done
> Obsolete deb packages deleted from apt cache: 0
> 
> Updating the list of locally available binary packages.
> Downloading the indexes of available packages in the binary distribution.
> 0% [Working]
> _
> 
> ...and there it waits, forever (or at least 24 hrs) without change 
> (still 0%).  So I'm dead in the water.  The old fink stuff still works, 
> as far as I can tell, but I can't make any changes or updates.
> 
> This is probably something really simple and I'm going to come off 
> looking like a noob, but... HELP!
> 

As far as I know we haven’t added a new binary distribution repository, so 
there’s really anything to reconfigure which will actually help in this case.  
It works for me:

...
Downloading the indexes of available packages in the binary distribution.
/sw/bin/apt-get-lockwait update
Hit http://bindist.finkmirrors.net stable/main Packages
Hit http://bindist.finkmirrors.net stable/main Release
Reading Package Lists... Done
Building Dependency Tree… Done

Maybe try running the command “sudo apt-get-lockwait update” manually to see if 
that works.  Also try “sudo apt-get update”—theoretically both should have the 
same behavior, but we might as well additional data.

Also, what are the contents of your /sw/etc/apt/sources.list file?  (Normally 
apt-get throws an error message promptly when there is a download error, 
however)

And what method are you using to give the fink tools administrative privileges? 
 

Finally, what OS X version are you using?

As a workaround to the immediate problem, you can use “fink configure” and shut 
off integration between fink and the binary distribution tools.  This will let 
you update, albeit always from source.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] texlive source

[Alexander Hansen]

> On May 21, 2016, at 10:51, PNM <p...@minoofar.com> wrote:
> 
> Has anyone managed to download the latest texlive source? fink cannot find 
> texlive-20140523-source.tar.xz in any mirror. I sent a note to the 
> maintainer, too.
> 
> Payam
> ___
> "... remember that the past was a lie, that memory has no return, that every 
> spring gone by could never be recovered, and that the wildest and most 
> tenacious love was an ephemeral truth in the end."
> --Gabriel Garcia Marquez, One Hundred Years of Solitude
> 

Upstream might have moved it.  The sources are available from Fink’s Master 
mirrors, however.  If the option to download from one of those mirrors doesn’t 
show up for you, then you might want to try running “fink configure” and 
electing to download from Master mirrors first.  

-- 
Alexander Hansen, Ph.D.
Fink User Liaison


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Re: [Fink-users] gcc6.1 and gcc5.3

[Alexander Hansen]

> On May 6, 2016, at 06:50, Giuliano Franchetti <g.franche...@gsi.de> wrote:
> 
> Hi to all, 
> 
> I am re-installing the fink distribution on my laptop, and 
> I notice something strange. The gcc6.1 only should be 
> installed, but I find that also gcc5.3 is getting installed. 
> 
> Is there something wrong or should it be like that ?
> 
> 
> Cheers 
> 
>   Giuliano 
> 
> 
> 
> ---
> Giuliano Franchetti 
> 
> Primary Beams / Beam Physik
> 
> Office: C27 3.018
> phone:   +49 6159 71 1535
> fax: +49 6159 71 3099
> e-mail:g.franche...@gsi.de <mailto:g.franche...@gsi.de>
> http://web-docs.gsi.de/~giuliano <http://web-docs.gsi.de/~giuliano> 
> 
> -- 
> GSI Helmholtzzentrum für Schwerionenforschung GmbH 
> Planckstraße 1 
> 64291 Darmstadt 
> www.gsi.de <http://www.gsi.de/> 
> 
> Gesellschaft mit beschränkter Haftung 
> Sitz der Gesellschaft: Darmstadt 
> Handelsregister: Amtsgericht Darmstadt, HRB 1528 
> 
> Geschäftsführung: 
> Ursula Weyrich, Prof. Dr. Karlheinz Langanke, Jörg Blaurock 
> 
> Vorsitzender des Aufsichtsrates: Staatssekretär Dr. Georg Schütte 
> Stellvertreter: Ministerialdirigent Dr. Rolf Bernhardt 
> 
> 
> 

That’s normal.  Since packages built using gcc normally link to its libraries, 
our packages are set up to coexist so that an update to a new gcc doesn’t 
immediately make everything that used the older one unusable.  This is our 
policy for any packages which provide shared libraries that other packages use.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] Problem loading spreadsheet into octave-3.2.8

[Alexander Hansen]

> On Apr 8, 2016, at 10:21, Ebrahim Mayat <ebma...@mac.com> wrote:
> 
> 
>> On Apr 8, 2016, at 1:15 PM, Alexander Hansen <alexanderk.han...@gmail.com 
>> <mailto:alexanderk.han...@gmail.com>> wrote:
>> 
>> 
>>> On Apr 8, 2016, at 10:13, Ebrahim Mayat <ebma...@mac.com 
>>> <mailto:ebma...@mac.com>> wrote:
>>> 
>>> Dear all
>>> 
>>> Having recently updated octave through fink on 10.11.4, I did some testing 
>>> this week. It is very convenient that additional octave packages can be 
>>> installed using the *-oct382 packages in fink (Nice work, Alexander Hansen 
>>> :-))
>>> 
>>> I have come across a bug in octave that I thought may be reported upstream.
>>> 
>>> When trying to import a spreadsheet, I get the following error even though 
>>> the io package is indeed installed:
>>> 
>>> octave:9> M1 = xlsread('Matrix.xls')
>>> warning: Functions for spreadsheet style I/O (.xls .xlsx .sxc .ods .dbf .wk1
>>> etc.)  are provided in the io package.  See <http://octave.sf.net/io/ 
>>> <http://octave.sf.net/io/>>.
>>> 
>>> Please read <http://www.octave.org/missing.html 
>>> <http://www.octave.org/missing.html>> to learn how you can
>>> contribute missing functionality.
>>> 
>>> 
>>> error: 'xlsread' undefined near line 1 column 6
>>> 
>>> 
>>> octave:9> pkg list
>>> Package Name  | Version | Installation directory
>>> --+-+---
>>>  control  |   2.8.5 | /sw/share/octave/3.8.2/packages/control-2.8.5
>>>  general  |   1.3.4 | /sw/share/octave/3.8.2/packages/general-1.3.4
>>>   io  |   2.2.4 | /sw/share/octave/packages/io-2.2.4
>>>   signal  |   1.3.0 | /sw/share/octave/3.8.2/packages/signal-1.3.0
>>>  specfun  |   1.1.0 | /sw/share/octave/3.8.2/packages/specfun-1.1.0
>>>   statistics  |   1.2.4 | /sw/share/octave/3.8.2/packages/statistics-1.2.4
>>>   struct  |  1.0.10 | /sw/share/octave/3.8.2/packages/struct-1.0.10
>>> 
>>> The fink octave install is indeed built with java support:
>>> 
>>> octave:10> octave_config_info ("features").JAVA
>>> ans =  1
>>> 
>>> 
>>> Has anybody else also had or know of a similar problem ?
>>> (BTW, the spreadsheet opens normally in Numbers)
>>> 
>>> Regards,
>>> Ebrahim
>>> 
>>> 
>> 
>> 
>> "pkg load io”.  It’s installed but not loaded by default. 
>> 
>> -- 
>> Alexander Hansen, Ph.D.
>> Fink User Liaison
> 
> Good Day Alexander,
> 
> Thanks for your reply. Even after manually loading the package, I get this 
> error:
> 
>  M1 = xlsread('Matrix1.xls')
> Detected XLS interfaces: None.
> warning: xlsopen.m: no support for spreadsheet I/O
> 
> warning: xlsread: some elements in list of return values are undefined
> M1 = [](0x0)
> 
> I will send you the xls file off-list.
> 
> E
> 

I believe that the issue may be that you don’t have an Excel converter which 
xlsread can use.  I’m not sure (1) what libraries are acceptable, and (2) 
whether we have them in Fink or not.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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Re: [Fink-users] Problem loading spreadsheet into octave-3.2.8

[Alexander Hansen]

> On Apr 8, 2016, at 10:13, Ebrahim Mayat <ebma...@mac.com> wrote:
> 
> Dear all
> 
> Having recently updated octave through fink on 10.11.4, I did some testing 
> this week. It is very convenient that additional octave packages can be 
> installed using the *-oct382 packages in fink (Nice work, Alexander Hansen 
> :-))
> 
> I have come across a bug in octave that I thought may be reported upstream.
> 
> When trying to import a spreadsheet, I get the following error even though 
> the io package is indeed installed:
> 
> octave:9> M1 = xlsread('Matrix.xls')
> warning: Functions for spreadsheet style I/O (.xls .xlsx .sxc .ods .dbf .wk1
> etc.)  are provided in the io package.  See <http://octave.sf.net/io/ 
> <http://octave.sf.net/io/>>.
> 
> Please read <http://www.octave.org/missing.html 
> <http://www.octave.org/missing.html>> to learn how you can
> contribute missing functionality.
> 
> 
> error: 'xlsread' undefined near line 1 column 6
> 
> 
> octave:9> pkg list
> Package Name  | Version | Installation directory
> --+-+---
>  control  |   2.8.5 | /sw/share/octave/3.8.2/packages/control-2.8.5
>  general  |   1.3.4 | /sw/share/octave/3.8.2/packages/general-1.3.4
>   io  |   2.2.4 | /sw/share/octave/packages/io-2.2.4
>   signal  |   1.3.0 | /sw/share/octave/3.8.2/packages/signal-1.3.0
>  specfun  |   1.1.0 | /sw/share/octave/3.8.2/packages/specfun-1.1.0
>   statistics  |   1.2.4 | /sw/share/octave/3.8.2/packages/statistics-1.2.4
>   struct  |  1.0.10 | /sw/share/octave/3.8.2/packages/struct-1.0.10
> 
> The fink octave install is indeed built with java support:
> 
> octave:10> octave_config_info ("features").JAVA
> ans =  1
> 
> 
> Has anybody else also had or know of a similar problem ?
> (BTW, the spreadsheet opens normally in Numbers)
> 
> Regards,
> Ebrahim
> 
> 


"pkg load io”.  It’s installed but not loaded by default. 

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

--
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Re: [Fink-users] Fontforge > Pango problem

[Alexander Hansen]

> On Apr 7, 2016, at 08:41, van Rijn Walter  wrote:
> 
> Hi Alexander,
> Yes I read the follow up post but did not understand it. I’ll have a look if 
> I can find the pango1-xft2-ft219 package and install it.
> Many thanks.
> Walter
> -
> Walter van Rijn
> wvr...@gmail.com 

 “fink install pango1-xft2-ft219” ought to suffice.

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Re: [Fink-users] Fontforge > Pango problem

[Alexander Hansen]

> On Apr 7, 2016, at 08:23, van Rijn Walter <wvr...@gmail.com> wrote:
> 
> Hi, I am using OSX 10.11.3, and want to use the app Fontforge in combination 
> with the app Potrace (it allows auto tracing from within Fontforge).
> I used to run it on an old OS but now upgraded my Mac with 10.11 and 
> installed Fink 0.39.3, uploaded Fontforge and Potrace. So far so good. 
> I am trying to get Fontforge running via Terminal: ~ waltervr$ fontforge
> and run into a problem with Pango:
> 
> Based on source from git with hash: 
> no xdefs_filename!
> TESTING: getPixmapDir:/sw/share/fontforge/pixmaps
> TESTING: getShareDir:/sw/share/fontforge
> TESTING: GResourceProgramDir:/sw/bin
> trying default theme:/sw/share/fontforge/pixmaps/resources
> fontforge.hasUserInterface!
> PyFF_onAppClosing() cnt:1
> 
> (process:3020): Pango-CRITICAL **: No modules found:
> No builtin or dynamically loaded modules were found.
> PangoFc will not work correctly.
> This probably means there was an error in the creation of:
>   '/sw/lib/pango-ft219/etc/pango/pango.modules'
> You should create this file by running:
>   pango-querymodules > '/sw/lib/pango-ft219/etc/pango/pango.modules'
> Fontconfig warning: "/sw/etc/fonts/conf.d/50-user.conf", line 9: reading 
> configurations from ~/.fonts.conf is deprecated.
> 
> (process:3020): Pango-WARNING **: failed to choose a font, expect ugly 
> output. engine-type='PangoRenderFc', script='latin'
> 
> (process:3020): Pango-WARNING **: failed to choose a font, expect ugly 
> output. engine-type='PangoRenderFc', script='common'
> 
> I fond some posts with same problem but not one with a solution I can 
> understand. 
> see:  http://article.gmane.org/gmane.os.macosx.fink.user/39784 
> <http://article.gmane.org/gmane.os.macosx.fink.user/39784>
> I did try to run:  pango-querymodules > 
> '/sw/lib/pango-ft219/etc/pango/pango.modules'
> return: -bash: /sw/lib/pango-ft219/etc/pango/pango.modules: No such file or 
> directory
> 
> Being a novice with running Linux apps via Terminal: how to solve this?
> 
> Many thanks for your time :)
> 
> -
> Walter van Rijn
> wvr...@gmail.com 
> <mailto:wvr...@gmail.com>-
> 
> ———

(They aren’t Linux apps because you aren’t on Linux)

Did you check the follow up post 
http://thread.gmane.org/gmane.os.macosx.fink.user/39784 ? pango.modules is 
installed by the “pango1-xft2-ft219” main package, so you might need to install 
that.

I’m cc’ing the fontforge maintainer since this potentially could be a missing 
dependency.

-- 
Alexander Hansen, Ph.D.
Fink User Liaison

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