Re: [galaxy-dev] Packaging tools with language specific dependencies

Hi Renato, Am 05.08.2014 um 17:34 schrieb Renato Alves: Hi Bjoern, Thanks for the info and the fix. So far we had no issues but it's not extensive testing. I'll let you know if it fails for some reason. In addition to the shebang change we also started using "perl script" instead of simply "s

Re: [galaxy-dev] Packaging tools with language specific dependencies

Hi Bjoern, Thanks for the info and the fix. So far we had no issues but it's not extensive testing. I'll let you know if it fails for some reason. In addition to the shebang change we also started using "perl script" instead of simply "script". Since "perl" is looked up in PATH, all else works a

Re: [galaxy-dev] Packaging tools with language specific dependencies

Hi Renato, cpanm is not the only problem it seems to be an general perl 'feature'. How annoying :( As I figured from: https://metacpan.org/source/RJBS/perl-5.20.0/Configure#L9162 we can use:-Dstartperl='#!/usr/bin/env perl' to change them via install. Now every perl script from the main perl

Re: [galaxy-dev] Packaging tools with language specific dependencies

Hi BJörn, We have run into some problems with the perl environment. This might also affect other tools that rely on a shebang with absolute paths to the interpreter. Details below. During the installation of the perl package (we tried package_perl_5_18 from main and testing toolshed), the cpanm s

Re: [galaxy-dev] Packaging tools with language specific dependencies

Hi Björn, Thanks, this is exactly what I was looking for. Cheers, Renato Quoting Björn Grüning on 30-07-2014 12:04: > Hi Renato, > > Am 30.07.2014 um 12:21 schrieb Renato Alves: >> Hi everyone, >> >> Is there any standard or commonly used way to package tools that have >> language specific depe

Re: [galaxy-dev] Packaging tools with language specific dependencies

Hi Renato, Am 30.07.2014 um 12:21 schrieb Renato Alves: Hi everyone, Is there any standard or commonly used way to package tools that have language specific dependencies. I know that with Python libraries one can use setup_virtualenv and with Java jars the JAVA_JAR_LIB strategy is used. Is the

[galaxy-dev] Packaging tools with language specific dependencies

Hi everyone, Is there any standard or commonly used way to package tools that have language specific dependencies. I know that with Python libraries one can use setup_virtualenv and with Java jars the JAVA_JAR_LIB strategy is used. Is there anything equivalent for R, Perl and Ruby libraries? Tha