[Fink-users] Got a suspicious phishing email

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, DSc Senior Bioinformatician, UniProt European Bioinformatics

Re: [Fink-users] About libmagic

Many thanks! I thought apt-cache search would work too. But great to know about the site. Alan On 5 October 2016 at 00:53, Alexander Hansen <alexanderk.han...@gmail.com> wrote: > > > On Oct 4, 2016, at 15:55, Alan <alanwil...@gmail.com> wrote: > > > > I am won

[Fink-users] About libmagic

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

Re: [Fink-users] openssl failed on a Mac with Sierra and case-sensitive filesystem

I did pretty the modification as seen in the patch, but manually and it worked. Many thanks, Alan On 3 October 2016 at 18:17, Derek Homeier < de...@astro.physik.uni-goettingen.de> wrote: > On 3 Oct 2016, at 12:14 pm, Alan <alanwil...@gmail.com> wrote: > > > > Howeve

Re: [Fink-users] Error in installing guile20

Thanks for the explanation! Alan On 3 October 2016 at 18:23, Derek Homeier < de...@astro.physik.uni-goettingen.de> wrote: > Hi Alan, > > On 2 Oct 2016, at 9:03 pm, Alan <alanwil...@gmail.com> wrote: > > > > Weird, I used Jack's files and it worked on Sier

Re: [Fink-users] openssl failed on a Mac with Sierra and case-sensitive filesystem

to install? Many thanks in advance, Alan On 3 October 2016 at 10:03, Schindler Karl-Michael < karl-michael.schind...@web.de> wrote: > > > Am 02.10.2016 um 21:03 schrieb fink-users-requ...@lists.sourceforge.net: > > > > Date: Sun, 2 Oct 2016 00:07:27 +0100 > > Fr

Re: [Fink-users] Error in installing guile20

Weird, I used Jack's files and it worked on Sierra. Fighting now to get openssl (another email submitted). Many thanks, Alan On 1 October 2016 at 02:41, Derek Homeier < de...@astro.physik.uni-goettingen.de> wrote: > Jack, > > > On 30 Sep 2016, at 8:23 pm, Jack How

[Fink-users] openssl failed on a Mac with Sierra and case-sensitive filesystem

ed.) Removing fink-buildlock-openssl110-dev-1.1.0a-1 ... Failed: phase installing: openssl110-dev-1.1.0a-1 failed Package manager version: 0.41.0 Distribution version: selfupdate-rsync Sat Oct 1 17:25:26 2016, 10.12, x86_64 Trees: local/main stable/main Xcode.app: 8.0 Xcode command-lin

Re: [Fink-users] Error in installing guile20

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. Alan On 30 September 2016 at 09:18, Alan <alanwil...@gmail.

Re: [Fink-users] Error in installing guile20

Hi there, Same problem here. I know Fink has ways of patching files ... if pointed how to do this, I can give a try. Thanks, Alan On 29 September 2016 at 16:41, Joakim Kjellsson <joakim.kjells...@gmail.com> wrote: > Hi > > I’ve been trying to install ffmpeg via fink, which r

[Fink-users] Where to find fink_0.41.0-101_darwin-x86_64.deb ?

Trying to follow http://www.finkproject.org/download/10.12-upgrade.php?phpLang=en 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

[Fink-users] Fink upgrade for Sierra

: can't install package fink-0.39.5-101 Is there a remedy or should I install Fink from scratch again? Many thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc Senior Bioinformatician, UniProt European Bioinformatics Institute (EMBL-EBI) European Molecular Biology Laboratory Wellcome Trust Genome

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

Thanks Alexander On 20 July 2016 at 17:46, Alexander Hansen <alexanderk.han...@gmail.com> wrote: > > > > On Jul 20, 2016, at 08:44, Alan <alanwil...@gmail.com> wrote: > > > > Thanks Alexander, > > > > So no 'npm' in Fink, right? > &

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

Thanks Alexander, So no 'npm' in Fink, right? On 20 July 2016 at 17:41, Alexander Hansen <alexanderk.han...@gmail.com> wrote: > > > On Jul 20, 2016, at 07:57, Alan <alanwil...@gmail.com> wrote: > > > > I see several node... > > > > Which one wo

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

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

[Fink-users] Xcode 7.1

I got this message after updating to Xcode 7.1: WARNING: Xcode.app version (7.1) and Xcode Command Line Tools version (7.0) I can’t find a way of updating command line. Thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc Senior Bioinformatician, UniProt European Bioinformatics Institute (EMBL

Re: [Fink-users] Xcode 7.1

I have 10.11 (not 10.11.1 yet). I will wait my fink finishes updating (taking ages as it has to compile from source) and then I will do the upgrade to 10.11.1 and again fink update. In another iMac, where everything is updated, I didn’t have this issue. Thanks, Alan On 22 October 2015 at 13:40

Re: [Fink-users] command line tools in El Capitan

Use App Store, search Xcode. Download it. Then start Xcode app, accept the T Cmd lines should be installed. I am afraid one cannot use Fink anymore without full Xcode installation. Alan On 2 October 2015 at 16:47, PNM <p...@minoofar.com> wrote: > I get this error from xcodebuild: >

[Fink-users] xcode issue with fink?

, 10.10, x86_64 Trees: local/main stable/main stable/crypto Mac OS X 10.10.3 Thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt European Bioinformatics Institute (EMBL-EBI) European Molecular Biology Laboratory Wellcome Trust Genome Campus Hinxton Cambridge CB10 1SD United

Re: [Fink-users] xcode issue with fink?

Thanks Alexander and Haspeter! Now, I could live without qt5, but apparently matplotlib depends on it now. Oh well, so I have to install the whole xcode just for MPL… Alan On 10 June 2015 at 12:36, Hanspeter Niederstrasser f...@snaggledworks.com wrote: On 6/10/2015 6:14 AM, Alan wrote

[Fink-users] x11 issue with fink?

(xorg-server 1.15.2) xcode-select version 2339. fink -V Package manager version: 0.38.5 Distribution version: selfupdate-rsync Wed Jun 10 12:11:30 2015, 10.10, x86_64 Trees: local/main stable/main stable/crypto Mac OS X 10.10.3 Thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician

Re: [Fink-users] x11 issue with fink?

Thanks Alexander, it worked as you said. Alan On 10 June 2015 at 12:36, Alexander Hansen alexanderk.han...@gmail.com wrote: On Jun 10, 2015, at 04:30, Alan alanwil...@gmail.com wrote: Trying to update my fink in another Mac that has full xcode.app installed and I found this: Information

[Fink-users] where’s /sw/bin/ls ?

I finally had to upgrade to Yosemite, did a clean Fink install (all fine), but alas, I have now idea which package installs /sw/bin/ls. Thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt European Bioinformatics Institute (EMBL-EBI) European Molecular Biology Laboratory

[Fink-users] aria2c missing lib

. Package manager version: 0.37.0 Distribution version: selfupdate-rsync Wed Jul 9 13:36:10 2014, 10.9, x86_64 Trees: local/main stable/main -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt European Bioinformatics Institute (EMBL-EBI) European Molecular Biology Laboratory Wellcome Trust

Re: [Fink-users] Issue with xcode

Jul 2 19:08:46 2014, 10.9, x86_64 Trees: local/main stable/main And now I have fink bin diet enabled. Thanks, Alan On 2 June 2014 16:09, Alan alanwil...@gmail.com wrote: Many thanks! (bin enabled) Alan On 2 June 2014 15:49, Alexander Hansen alexanderk.han...@gmail.com wrote: On 6/2/14

[Fink-users] Issue with xcode

: 0.36.4.1 Distribution version: selfupdate-rsync Mon Jun 2 15:08:51 2014, 10.9, x86_64 Trees: local/main stable/main Thanks Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt European Bioinformatics Institute (EMBL-EBI) European Molecular Biology Laboratory Wellcome Trust Genome

Re: [Fink-users] Issue with xcode

Many thanks! (bin enabled) Alan On 2 June 2014 15:49, Alexander Hansen alexanderk.han...@gmail.com wrote: On 6/2/14, 7:15 AM, Alan wrote: Hi I have only the “xcode command line” installed. How do I sort the issue below? Information about 9742 packages read in 1 seconds. Can't resolve

[Fink-users] Can’t install rpy2

: selfupdate-rsync Wed Feb 12 10:15:25 2014, 10.9, x86_64 Trees: local/main stable/main No recognized Xcode.app installed Xcode command-line tools: 5.0.1.0.1.1382131676 Thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt European Bioinformatics Institute (EMBL-EBI) European

Re: [Fink-users] Can’t install rpy2

/Frameworks/R.framework/Versions/2.15/Resources --- %p/bin/python%type_raw[python] setup.py build --r-home=%p/Library/Frameworks/R.framework/Versions/3.0/Resources and don’t forget rpy2-py.patch. Alan On 12 February 2014 19:49, Hanspeter Niederstrasser f...@snaggledworks.comwrote: On 2/12/2014 5

Re: [Fink-users] Failed: phase installing: test-deep-pm5162-0.112-1failed

Thanks a lot, it’s all fine now. Alan On 21 January 2014 13:58, Daniel Macks dma...@netspace.org wrote: On Tue, 21 Jan 2014 12:47:03 +, Alan alanwil...@gmail.com wrote: Installing /sw/src/fink.build/root-test-deep-pm5162-0.112-1/sw/share/ man/man3/Test::Deep::NoTest.3pm Appending

[Fink-users] Which X11 with Mavericks?

Hi, I am in process to install Fink 0.36 and then I screen popup asking me to install X11 from Xquartz. Then a link take me to http://xquartz.macosforge.org/landing/ But I don’t see maverick option there. What should I do please? Thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc

Re: [Fink-users] fink install rpy2-py27 ?

Thanks a lot, it did work, but I have to copy rpy2-py.patch as well. Cheers, Alan On 11 October 2013 18:28, Hanspeter Niederstrasser f...@snaggledworks.comwrote: On 10/11/2013 10:02 AM, Alan wrote: Failed: no package found for specification 'rpy2-py27'! Using Package manager version

[Fink-users] fink install rpy2-py27 ?

Failed: no package found for specification 'rpy2-py27'! Using Package manager version: 0.35.2 Distribution version: selfupdate-rsync Thu Oct 10 14:00:42 2013, 10.8, x86_64 Trees: local/main stable/main local/injected Thanks in advance, Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician

Re: [Fink-users] fink with Xcode 5

had, but now apparently I have to pay $99? Can someone elaborate here please? Thanks, Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt European Bioinformatics Institute (EMBL-EBI) European Molecular Biology Laboratory Wellcome Trust Genome Campus Hinxton Cambridge CB10 1SD United

Re: [Fink-users] Fink and cx_Oracle

Thanks for your suggestion. Indeed, I tried but didn't work. I am wondering if there's anyone in Fink list that uses Fink python 64 bits and cx_Oracle. Alan On 2 July 2013 18:50, Alexander Hansen alexanderk.han...@gmail.com wrote: On 7/1/13 7:01 AM, Alan wrote: Hi there, I am trying

[Fink-users] Fink and cx_Oracle

thanks in advance, Alan -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt - PANDA, EMBL-EBI CB10 1SD, Hinxton, Cambridge, UK +44 1223 49 4588 -- This SF.net email is sponsored by Windows: Build for Windows Store

[Fink-users] Gromacs again

: local/main stable/main local/injected Xcode.app: 4.6 Xcode command-line tools: 4.5.0.0.1.1249367152 Max. Fink build jobs: 4 -- Alan Wilter SOUSA da SILVA, DSc Bioinformatician, UniProt - PANDA, EMBL-EBI CB10 1SD, Hinxton, Cambridge, UK +44 1223 49 4588

Re: [Fink-users] Gromacs again

Well spotted Jack. Indeed, I thought I had disabled cuda when I moved to iMac, but it was still in my $PATH. However, it only worked after I had deleted /usr/local/cuda. Thanks, Alan On 4 March 2013 15:05, Jack Howarth howa...@bromo.med.uc.edu wrote: On Mon, Mar 04, 2013 at 07:59:03AM -0700

[Fink-users] failing version-requirements-pm5100

-pm5100_0.101020-1_darwin-x86_64.deb ### execution of /sw/bin/dpkg-lockwait failed, exit code 1 Failed: can't install package version-requirements-pm5100-0.101020-1 Thanks in advance, Alan -- Alan Wilter SOUSA da SILVA, D.Sc. Bioinformatician, UniProt - PANDA, EBI-EMBL CB10 1SD, Hinxton, Cambridge, UK

Re: [Fink-users] failing version-requirements-pm5100

Yes, I do have case-sensitive HFS as well, oh boy... Alan On 14 March 2011 14:43, Alexander Hansen alexanderk.han...@gmail.comwrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 On 3/14/11 9:39 AM, Alan Wilter Sousa da Silva wrote: Hi there, I am using: Package manager version

Re: [Fink-users] failing version-requirements-pm5100

Thanks! Alan On 14 March 2011 16:42, Alexander Hansen alexanderk.han...@gmail.comwrote: /sw/lib/perl5/5.10.0/darwin-thread-multi-2level/auto/version -- Alan Wilter SOUSA da SILVA, D.Sc. Bioinformatician, UniProt - PANDA, EBI-EMBL CB10 1SD, Hinxton, Cambridge, UK +44 1223 49 4588

Re: [Fink-users] can't update-all because libgeos3.2.2-shlibs

Thanks Alex, it worked. Alan On 11 January 2011 15:21, Alexander Hansen alexanderk.han...@gmail.comwrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 On 1/11/11 9:57 AM, Alan Wilter Sousa da Silva wrote: Hi there, I use fink: Package manager version: 0.29.17 Distribution

[Fink-users] can't update-all because libgeos3.2.2-shlibs

? Thanks in advance, Alan -- Alan Wilter SOUSA da SILVA, D.Sc. Bioinformatician, UniProt - PANDA, EBI-EMBL CB10 1SD, Hinxton, Cambridge, UK +44 1223 49 4588 -- Gaining the trust of online customers is vital for the success

[Fink-users] fink update failed because of gdal-shlibs

is it and why I need it. Many thanks in advance, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

[Fink-users] about updating to python 2.7

it would work as guide for me to update to python 2.7? Many thanks, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

[Fink-users] mpich2

Hi there, Have we ever had mpich for Fink? Thanks, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

Re: [Fink-users] failed to install pyobjc-py26

with exit status 1 I hope you can help me. Alan On Mon, May 17, 2010 at 20:23, Alexander Hansen alexanderk.han...@gmail.com wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 On 5/17/10 3:09 PM, Alan wrote: Thanks Alexander, you're question was the first thing I checked which gcc

[Fink-users] failed to install pyobjc-py26

line option -Wno-long-double error: command 'gcc' failed with exit status 1 Mac OSX 10.6.3 Package manager version: 0.29.10 Distribution version: selfupdate-cvs Mon May 17 14:30:16 2010, 10.6, x86_64 Thanks Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department

Re: [Fink-users] issue with numpy-py26 1.3.0-7

Thanks a lot Derek. Everything looks fine and my applications is running 100% OK. So definitely numpy 1.4.1 solved my problems. Alan On Thu, May 13, 2010 at 20:58, Derek Homeier de...@astro.physik.uni-goettingen.de wrote: Hi, Developing our application here, based on python, and we start

[Fink-users] gcc45-4.5.0-1001 and openmpi-1.4.1-1000

Dear all, Is there a tentative date for releasing openmpi-1.4.1 and gcc45 at least on CVS? Thanks Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

[Fink-users] issue with numpy-py26 1.3.0-7

Hi there, Developing our application here, based on python, and we start to see this error: ValueError: can't handle version -1 of numpy.dtype pickle My partner uses MacPorts and solved this issue by updating numpy to 1.4. I was wondering if numpy 1.4 for Fink is on the way. Thanks, Alan

[Fink-users] /sw/bin/mpicc is linking to /usr/bin/gcc and not /sw/bin/gcc-4

: posix gcc version 4.4.2 (GCC) So my program failed to link 'mpicc ... -lgfortran ...'. Is it a correct behaviour? I don't think so. How to solve this issue? I am using Fink 64 cvs on SL 10.6.3. Thanks, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry

Re: [Fink-users] /sw/bin/mpicc is linking to /usr/bin/gcc and not /sw/bin/gcc-4

Developer Tools dpkg -S /sw/bin/mpif77 openmpi-dev: /sw/bin/mpif77 I hope it may help you to help me. Thanks, Alan On Thu, Apr 29, 2010 at 14:17, Alexander Hansen alexanderk.han...@gmail.com wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 On 4/29/10 8:11 AM, Alan wrote: Hi

Re: [Fink-users] /sw/bin/mpicc is linking to /usr/bin/gcc and not /sw/bin/gcc-4

, however, so I don't really have a way to test it. I second this. Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

[Fink-users] gfortran failing to link with C code

gcc_select? Any help helps, thanks a lot in advance, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

Re: [Fink-users] qtpfsgui-mac failed in SL 10.6.2 with Fink

-qtpfsgui-mac-1.9.3-1002 (Reading database ... 149186 files and directories currently installed.) Removing fink-buildlock-qtpfsgui-mac-1.9.3-1002 ... Failed: phase compiling: qtpfsgui-mac-1.9.3-1002 failed [snip] Many thanks in advance, Alan On Wed, Dec 9, 2009 at 17:59, Alexander Hansen

[Fink-users] updating openbabel to from 2.0.2 to 2.2.3

Hi Justin, Is there any chance to get openbabel updated in Fink to version 2.2.3? Many thanks in advance, Alan -- Alan Wilter Sousa da Silva, D.Sc. PDBe group, PiMS project http://www.pims-lims.org/ EMBL - EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK +44 (0)1223 492 583

[Fink-users] qtpfsgui-mac failed in SL 10.6.2 with Fink

-buildlock-qtpfsgui-mac-1.9.3-1002 (Reading database ... 142763 files and directories currently installed.) Removing fink-buildlock-qtpfsgui-mac-1.9.3-1002 ... Failed: phase compiling: qtpfsgui-mac-1.9.3-1002 failed Many thanks in advance, Alan -- Alan Wilter Sousa da Silva, D.Sc. PDBe group, PiMS

Re: [Fink-users] findutils and Time Machine, two great tastes that don't go great together

On Sun, Oct 18, 2009 at 7:02 PM, monipol moni...@gmx.com wrote: Hello, Douglas. This looks like an upstream (GNU) bug. Would you please report it to them? Okay, I have reported the issue to them. |ouglas -- Come

[Fink-users] findutils and Time Machine, two great tastes that don't go great together

I'm not sure where the right place to report fink package bugs is, so I'll do so here: The findutils package adds an anacron job that runs a find over all your filesystems in the wee hours of the morning in order to build the database for locate. Unfortunately, if you happen to have a Time

[Fink-users] FEtk for Fink

Hi there, Can someone tell me if FEtk will be included in Fink? http://www.fetk.org/ I know that at least APBS may do use of it. Many thanks in advance. Alan -- Come build with us! The BlackBerryreg; Developer

[Fink-users] openmotif4 to replace openmotif3

that the maintainer updated it for unstable. Molmol is working fine for me. Cheers, Alan -- Come build with us! The BlackBerryreg; Developer Conference in SF, CA is the only developer event you need to attend this year. Jumpstart

[Fink-users] Fwd: Fink for me (10.6.1, XQuartz, 32 bit)

BTW, I am about to upgrade to SN 10.6 and I use xquartz 2.4.0. What should I do? Remove xquartz 2.4.0 or hope SN will do it for me? Many thanks, Alan On Mon, Sep 14, 2009 at 14:52, David Reiser dbrei...@earthlink.net wrote: On Sep 14, 2009, at 6:34 AM, monipol wrote: I'm not sure

Re: [Fink-users] testing apbs-mpi

programmes like mdrun_mpi from gromacs) this is likely not simple. Cheers, Alan On Mon, Aug 17, 2009 at 07:57, Alan alanwil...@gmail.com wrote: I think it's fixed at least with openmpi since apbs-mpi is working as expected AFAIK. Cheers, Alan On Mon, Aug 17, 2009 at 03:57, William G. Scott

Re: [Fink-users] testing apbs-mpi

I think it's fixed at least with openmpi since apbs-mpi is working as expected AFAIK. Cheers, Alan On Mon, Aug 17, 2009 at 03:57, William G. Scott wgsc...@chemistry.ucsc.eduwrote: Hi Alan: Sorry, I was away in the most inaccessible part of Utah I could find. I think Jack Howarth fixed

Re: [Fink-users] testing apbs-mpi

Still, is it possible to make openmpi with a handle for xgrid? It should be as simple as openmpi-static and openmpi-shared. Of course that it's not urgent since xgrid support is broken in openmpi 1.3.x series so far. Cheers, Alan On Sat, Aug 15, 2009 at 18:35, Daniel Macks dma...@netspace.org

Re: [Fink-users] testing apbs-mpi

Thanks Jack, I am using you files anyway. Excellent job. Alan On Sat, Aug 15, 2009 at 03:47, Jack Howarth howa...@bromo.med.uc.eduwrote: Alan, I have uploaded a first pass of new apbs-mpi packaging which builds apbs properly against openmpi. It probably still needs work to make compatible

Re: [Fink-users] testing apbs-mpi

and I didn't get it to work with Fink openmpi libs. Any help here would be very appreciated. Cheers, Alan On Thu, Aug 13, 2009 at 17:22, Alan alanwil...@gmail.com wrote: Hi There, So I installed apbs-mpi-openmpi and it seems to work fine but when trying this link to run in multi-core machine

Re: [Fink-users] openmpi with xgrid

or need this functionality but having a 'openmpi-xgrid' option in fink would be plus (at least for me). Cheers, Alan On Thu, Aug 13, 2009 at 14:18, Jack Howarth howa...@bromo.med.uc.eduwrote: The failure to build the Xgrid support appears to be related to its incompatibility with the -enable

[Fink-users] openmpi with xgrid

XGrid components must be built as DSOs. means and if it would be possible to get openmpi with xgrid support? Thanks, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http

Re: [Fink-users] openmpi with xgrid

I believe you're right because I saw some reference to that elsewhere. I will carry some tests here. Thanks. Alan On Thu, Aug 13, 2009 at 14:18, Jack Howarth howa...@bromo.med.uc.eduwrote: The failure to build the Xgrid support appears to be related to its incompatibility with the -enable

Re: [Fink-users] openmpi with xgrid

I was about to do a similar question and here it goes: Why actually openmpi in Fink is compiled with static? Alan On Thu, Aug 13, 2009 at 16:16, Daniel Macks dma...@netspace.org wrote: On Thu, Aug 13, 2009 at 09:18:30AM -0400, Jack Howarth wrote: The failure to build the Xgrid support

[Fink-users] testing apbs-mpi-openmpi

? Cheers, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28 -- Let Crystal Reports

[Fink-users] rasmol md5 seems broken

Actual: MD5(2f43c606775248398dc71ce559b35245) SHA1(0e307d7a789d4cd201862c317b21d5d7e67730cf) Downloading the file RasMol_2.7.5.tar.gz failed. (1) Give up (2) Retry the same mirror Failed: file download failed for RasMol_2.7.5.tar.gz of package rasmol-2.7.5-1 Maintainer cc'ed. Alan -- Alan

[Fink-users] transfig for fink 64bits

i386 Cheers, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28 -- Let

[Fink-users] failed for boost-jam in fink x86_64

. Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28 -- Let Crystal Reports

Re: [Fink-users] failed to install apbs

. Scott Contact info: http://chemistry.ucsc.edu/~wgscott/ -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

Re: [Fink-users] failed to install apbs

And I know why: where just 'cp' replace with '/bin/cp'. I guess I had problem because I use package 'coreutils' Many thansk William! Cheers, Alan On Sun, Aug 2, 2009 at 12:13, Alan alanwil...@gmail.com wrote: Really sorry, but it didn't work for me... even after a fresh install. # # make

Re: [Fink-users] failed to install apbs

in advance. Alan On Fri, Jul 31, 2009 at 19:35, Alexander Hansen alexanderk.han...@gmail.com wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 William Scott wrote: There's something funny going on in the install script. For one thing, it's installing files in /sw/src/fink.build

Re: [Fink-users] failed to install apbs

will not have such a problem as you saw by yourself. I will test something here... Cheers, Alan On Sat, Aug 1, 2009 at 15:33, Alexander Hansen alexanderk.han...@gmail.comwrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Alan wrote: Hi there, Well, I found this: find /sw/src

[Fink-users] failed to install apbs

in advance, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28 -- Let Crystal

[Fink-users] scipy-py26 x86_64 from Fink

Hi List, scipy-py26 x86_64 from Fink. Scipy-py26 worked for me, but I have to do this: # modify /sw/fink/10.4/unstable/main/finkinfo/sci/scipy-py.info: gcc43 - gcc44 fink install scipy-py26 Cheers, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry

[Fink-users] dbus in 64 bits

. exit 1 fi You must install the 'passwd' package for D-Bus to build properly. [snip] Running id -u messagebus: id: messagebus: No such user So, I believe that I have to create this user, but how to do it safely? Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate

[Fink-users] povray for fink 64 bits failing

' for more details. [snip] Any idea of how to solve this issue? Many thanks in advance. Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

[Fink-users] a fix for boost-jam.info for fink 64 bits

I added x86_64) machine=x86_64;; in /sw/fink/10.4/unstable/main/finkinfo/devel/boost-jam.info See attached file. Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http

[Fink-users] uname -m = x86_64 ?

Hi There! Is there any Mac OSX Leopard out there that would return x86_64 for uname -m? I want to build packages with x86_64 (64 bits) but unless I touch *.info files in Fink it won't happen since in my computer (new MBP) I get: uname -m : i386 Cheers, Alan -- Alan Wilter S. da Silva, D.Sc

[Fink-users] to create python26 with arch x86_64

/python2.6 -rw-r--r-- 1 root admin 6712224 2009-07-17 10:13 /sw/lib/python2.6/config/libpython2.6.a Any comment would be really appreciate, many thanks in advance. Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court

[Fink-users] make -j n

Hi List, I was wondering if would be possible to make Fink aware of a multicores system and then use make -j n for speedup compilation. Sometimes I modified the _program_.info file in order to do that, but is it possible to do that for the whole system? Cheers, Alan -- Alan Wilter S. da Silva

[Fink-users] fink x86_64 failed for python26

installed.) Removing fink-buildlock-python26-2.6.2-2 ... Failed: phase compiling: python26-2.6.2-2 failed Any help appreciated, many thanks in advance, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road

[Fink-users] vncserver: couldn't find Xvnc on your PATH

Hi. Anyone know what happened to the tightvnc package ? It still installs, but Xvnc is no longer included, which makes it unsuitable for my purposes. Is there another way for me to easily get TightVNC's Xvnc installed? Can I revert to an older version of the Fink package that still has it?

Re: [Fink-users] vncserver: couldn't find Xvnc on your PATH

Alexander Hansen [EMAIL PROTECTED] wrote: On Monday 14 July 2008 13:54:18 Douglas Alan wrote: Hi. Anyone know what happened to the tightvnc package ? It still installs, but Xvnc is no longer included, which makes it unsuitable for my purposes. Is there another way for me to easily

[Fink-users] problem with plotting with python (matplotlib) on Desktop

Hi All, I have installed matplotlib-py25 on both my Desktop (intel mac) and Macbook pro (intel) both running Leopard. During testing I found that everything worked fine on my Macbook, that is I could do a simple plot, however following the same fink install process on my Desktop I was

[Fink-users] Manually downloading Fink packages

/direct_download/source/ Do the fink info files apply only to the binaries? And the deb files apply to the source? Thanks Alan J. Robinson - This SF.net email is sponsored by DB2 Express Download DB2 Express C - the FREE version

Re: [Fink-users] selfupdate fails while trying to test fink 0.26.1

kinako wrote: Hi, On Mar 13, 2007, at 9:41, Geoffrey Alan Washburn wrote: % sudo fink selfupdate why do you use `sudo` ? Habit. Ideally it shouldn't make a difference. If I'm wrong let me know, but it would be kind of unfortunate if fink couldn't be installed by root

Re: [Fink-users] selfupdate fails while trying to test fink 0.26.1

Alexander K. Hansen wrote: It's usually best if you give a verbatim transcript of the error message. As the error was on a different computer from where I wrote the e-mail it wasn't straightforward at the time. This time I've attached a full log. One thing to check, though, is whether

[Fink-users] selfupdate fails while trying to test fink 0.26.1

It appears to be failing on execute_nonroot_okay with error messages about sudo being unable to execute /sw/bin/env because Permission denied. I am somewhat suspecting that this may be caused by having moved my /sw directory to another volume and then creating a symlink to it.

Re: [Fink-users] arts failling because of missing zlib for python in Fink

Thanks Martin, In my installation appears /sw/lib/python2.4/lib-dynload/zlib_failed.so I just link my working mac python zlib.so there and now it's working. Thanks again. Cheers, Alan On 28/12/06, Martin Costabel [EMAIL PROTECTED] wrote: Alan wrote: Dears, I use Mac OSX 10.4.8 Intel

[Fink-users] arts failling because of missing zlib for python in Fink

, 'import zlib' fails). I would thank you very much if anyone could give any hint in this topic. Cheers, Alan -- Alan Wilter S. da Silva, D.Sc. - CCPN Research Associate Department of Biochemistry, University of Cambridge. 80 Tennis Court Road, Cambridge CB2 1GA, UK. http://www.bio.cam.ac.uk/~awd28

[Fink-users] TIP: fixing problems with installing apache2 on 10.4

the built-in one, the orphaned (/sw/sbin/apache2), and reconfigured the apache2.conf so that it could come up, I was able to complete the install. Just wanted to post this since I wasted about 8 hours today figuring this out. Good luck, Alan

[Fink-users] Unrecorded dependency

It would appear that the package gucharmap requires gnome-doc-util, but doesn't know about the dependency. --- This SF.net email is sponsored by: Splunk Inc. Do you grep through log files for problems? Stop! Download the new AJAX search

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