On 25 Oct 2014, at 22:01, Alexander Hansen <alexanderk.han...@gmail.com> wrote:
> On 10/25/14, 1:53 PM, Viv Kendon wrote:
>>
>> On 25 Oct 2014, at 21:44, Alexander Hansen <alexanderk.han...@gmail.com>
>> wrote:
>>
>>> On 10/25/14, 1:08 PM, Viv Kendon wrote:
>>>>
>>>> On 25 Oct 2014, at 20:23, Viv Kendon <v...@trellick.net> wrote:
>>>>
>>>>>
>>>>> On 25 Oct 2014, at 19:06, Alexander Hansen <alexanderk.han...@gmail.com>
>>>>> wrote:
>>>>>
>>>>>> <snip>
>>>>>>
>>>>
>>>> I added “then” myself, and now the build gets further, but the error is
>>>> still libcxx-fix.h related (and I’ve updated the subject line too, since
>>>> we are in principle on to a different package):
>>>>
>>>> find . -name NOINSTALL -print # shows which toolboxes won't be installed
>>>>
>>>> In file included from ov-netcdf.cc:20:
>>>> In file included from ./ov-netcdf.h:25:
>>>> In file included from /sw/include/octave-3.6.4/octave/../octave/oct.h:33:
>>>> In file included from /sw/include/octave-3.6.4/octave/Matrix.h:30:
>>>> In file included from /sw/include/octave-3.6.4/octave/mx-base.h:65:
>>>> In file included from /sw/include/octave-3.6.4/octave/boolSparse.h:29:
>>>> In file included from /sw/include/octave-3.6.4/octave/Sparse-op-defs.h:31:
>>>> /sw/include/octave-3.6.4/octave/mx-inlines.cc:311:10: fatal error:
>>>> 'libcxx-fix.h' file not found
>>>> #include "libcxx-fix.h"
>>>> ^
>>>> 1 error generated.
>>>> make: *** [ov-netcdf.o] Error 1
>>>> 'make' returned the following error: make: Entering directory
>>>> `/private/var/tmp/oct-5qlvpF/octcdf/src'
>>>> /sw/bin/mkoctfile-3.6.4 -DHAVE_OCTAVE_ -v -c ov-netcdf.cc -I/sw/include
>>>> -I/sw/include -DHAVE_OCTAVE_INT
>>>> oct-cxx -c -I/sw/include -fPIC -I/sw/include/octave-3.6.4/octave/..
>>>> -I/sw/include/octave-3.6.4/octave -I/sw/include -I/sw/include
>>>> -I/sw/include/freetype2 -I/sw/include -I/sw/include -O3 -MD
>>>> -I/usr/X11/include -std=c++0x -I/sw/include -I/sw/include -DHAVE_OCTAVE_
>>>> -DHAVE_OCTAVE_INT ov-netcdf.cc -o ov-netcdf.o
>>>> make: Leaving directory `/private/var/tmp/oct-5qlvpF/octcdf/src'
>>>> error: called from 'pkg>configure_make' in file
>>>> /sw/share/octave/3.6.4/m/pkg/pkg.m near line 1385, column 9
>>>> error: called from:
>>>> error: /sw/share/octave/3.6.4/m/pkg/pkg.m at line 827, column 5
>>>> error: /sw/share/octave/3.6.4/m/pkg/pkg.m at line 383, column 9
>>>> error:
>>>> /sw/src/fink.build/octcdf-nc4-oct364-1.1.7-1/octcdf/octave-forge-comp at
>>>> line 4, column 1
>>>>
>>>> many thanks,
>>>> — Viv
>>>
>>> No, almost _EVERYTHING_ needs that once it's been introduced.
>>>
>>> Could you verify whether libcxx-fix is indeed present in your
>>> octave364-*-dev ?
>>
>> I don’t think so, dpkg -S libcxx-fix returns nothing, and a “find” at the
>> /sw level does not return it either. I have the following octave packages
>> installed:
>>
>> fink list -ti oct
>> Information about 10297 packages read in 1 seconds.
>> i fink-octave-scripts 0.3.2.1-1 Convenience scripts for
>> Octave add-ons
>> p liboctave364 [virtual package]
>> p liboctave364-dev [virtual package]
>> p liboctave364-gcc49 [virtual package]
>> p liboctave364-gcc49-dev [virtual package]
>> p liboctave364-newatlas [virtual package]
>> p liboctave364-newatlas-dev [virtual package]
>> p liboctave364-x11 [virtual package]
>> p liboctave364-x11-dev [virtual package]
>> p liboctave382 [virtual package]
>> p liboctave382-gcc49 [virtual package]
>> p liboctave382-newatlas [virtual package]
>> p liboctave382-x11 [virtual package]
>> i octave-atlas-x11 3.8.2-3 MATLAB-like language for computations
>> p octave-interpreter [virtual package]
>> p octave-interpreter-newatlas [virtual package]
>> p octave-interpreter-x11 [virtual package]
>> i octave364-atlas-x11 3.6.4-11 MATLAB-like language for
>> computations
>> i octave364-atlas-x11-dev 3.6.4-11 MATLAB-like language for
>> computations
>> i octave364-atlas-x11-shlibs 3.6.4-11 MATLAB-like language
>> for computations
>> i octave364-docs 3.6.4-1 Documentation for Octave, various formats
>> p octave364-interpreter [virtual package]
>> p octave364-interpreter-newatlas [virtual package]
>> p octave364-interpreter-x11 [virtual package]
>> i octave382-atlas-x11 3.8.2-3 MATLAB-like language for computations
>> p octave382-interpreter [virtual package]
>> p octave382-interpreter-newatlas [virtual package]
>> p octave382-interpreter-x11 [virtual package]
>>
>> many thanks,
>> — Viv
>>
>
> The if-then that you fixed was _supposed_ to copy that over for 10.9 and
> later. As a workaround, maybe start a rebuild of octave364-atlas-x11, stop
> it after the patch phase, and manually do a
>
> sudo cp
> /sw/src/fink.build/octave-3.6.4-11/octave-3.6.4/liboctave/libcxx-fix.h
> /sw/include/octave-3.6.4/octave/
Many thanks, I did that, then restarted fink install bundle-octave-atlas. It
went through the oct364 packages in alphabetical order, so here is how it dies
for java:
ans = /sw/src/fink.build/java-oct364-1.2.9-3/bld/share/octave/3.6.4/packages
mkdir (/var/tmp/oct-l9vVbi)
untar (./java.tar, /var/tmp/oct-l9vVbi)
Error while trying to install Java package:
JAVA_HOME environment variable does not properly point to a JDK
Hint:
JAVA_HOME should usually be set such that either:
(on *nix:)
<JAVA_HOME>/jre/lib/<arch>/client/ contains libjvm.so (file or symlink)
(on OSX:)
<JAVA_HOME>/../Libraries/ contains a file libclient.dylib
(on Windows:)
<JAVA_HOME>/jre/lib/<arch>/ contains a file jvm.cfg
(<arch> depends on your system hardware, can be i386, x86_64, alpha, arm, ...)
Use forward slashes as path separator, also on Windows
Aborting pkg install
error: called from 'pre_install' in file
/private/var/tmp/oct-l9vVbi/java/pre_install.m near line 115, column 5
error: called from:
error: /sw/share/octave/3.6.4/m/pkg/pkg.m at line 827, column 5
error: /sw/share/octave/3.6.4/m/pkg/pkg.m at line 383, column 9
error: /sw/src/fink.build/java-oct364-1.2.9-3/java/octave-forge-comp at line
4, column 1
I then manually verified that octcdf-nc4-oct364 now installs fine.
Will I need to manually copy libcxx-fix.h for octave382 as well? And is the
file identical to the octave364 copy, or do I need to start a rebuild for
octave382 to get the corresponding file?
many thanks,
— Viv
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