Mercurial > repos > iuc > package_perl_5_18

comparison tool_dependencies.xml @ 4:8b3509930a44 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_perl_5_18 commit 14be1b424bf939451dd8c4706b14a7cac6941165
author iuc
date Fri, 25 Sep 2015 09:17:12 -0400
parents fd34b72b501b
children d905bb415eca
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3:fd34b72b501b 4:8b3509930a44
1 <?xml version="1.0"?>
1 <tool_dependency> 2 <tool_dependency>
3 <package name="gnu_coreutils" version="8.22">
4 <repository changeset_revision="ac64dfe4b1fb" name="package_gnu_coreutils_8_22" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package>
2 <package name="perl" version="5.18.1"> 6 <package name="perl" version="5.18.1">
3 <install version="1.0"> 7 <install version="1.0">
4 <actions> 8 <actions>
5
6 <!-- install perl --> 9 <!-- install perl -->
7 <action type="download_by_url">http://www.cpan.org/src/5.0/perl-5.18.1.tar.gz</action> 10 <action type="download_by_url">http://www.cpan.org/src/5.0/perl-5.18.1.tar.gz</action>
11 <!-- get coreutils in path, to avoid using system's mktemp, which might have differing syntax -->
12 <action type="set_environment_for_install">
13 <repository changeset_revision="ac64dfe4b1fb" name="package_gnu_coreutils_8_22" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
14 <package name="gnu_coreutils" version="8.22" />
15 </repository>
16 </action>
8 <action type="shell_command">./Configure -des -Dprefix=$INSTALL_DIR -Dstartperl='#!/usr/bin/env perl'</action> 17 <action type="shell_command">./Configure -des -Dprefix=$INSTALL_DIR -Dstartperl='#!/usr/bin/env perl'</action>
9 <action type="make_install" /> 18 <action type="make_install" />
10 <action type="change_directory">..</action> 19 <action type="change_directory">..</action>
11 <action type="download_file">http://www.cpan.org/authors/id/A/AP/APEIRON/local-lib-1.008009.tar.gz</action> 20 <action type="download_file">http://www.cpan.org/authors/id/A/AP/APEIRON/local-lib-1.008009.tar.gz</action>
12 <action type="shell_command">tar xfvz local-lib-1.008009.tar.gz</action> 21 <action type="shell_command">tar xfvz local-lib-1.008009.tar.gz</action>
13 <action type="change_directory">local-lib-1.008009</action> 22 <action type="change_directory">local-lib-1.008009</action>
14 <!-- TODO: Here we need to use the new installed perl binary --> 23 <!-- TODO: Here we need to use the new installed perl binary -->
15 <action type="shell_command">export PATH=$INSTALL_DIR/bin/:$PATH; perl Makefile.PL --bootstrap=$INSTALL_DIR/local-lib/ --no-manpages</action> 24 <!-- Test whether $TMP_WORK_DIR exists (introduced in galaxy release 15.07).
25 If not, fall back to using mktemp. Should be set to HOME=$TEMP_WORK_DIR in the future. -->
26 <action type="shell_command">if [ -d "$TMP_WORK_DIR" ] ; then export HOME=$TMP_WORK_DIR ; else export HOME=`mktemp -d` ; fi ; export PATH=$INSTALL_DIR/bin/:$PATH; perl Makefile.PL --bootstrap=$INSTALL_DIR/local-lib/ --no-manpages</action>
16 <action type="shell_command">make install</action> 27 <action type="shell_command">make install</action>
17 <action type="shell_command">export PATH=$INSTALL_DIR/bin/:$PATH; eval $(perl -I$INSTALL_DIR/local-lib/perl5 -Mlocal::lib=$INSTALL_DIR/local-lib)</action> 28 <action type="shell_command">export PATH=$INSTALL_DIR/bin/:$PATH; eval $(perl -I$INSTALL_DIR/local-lib/lib/perl5 -Mlocal::lib=$INSTALL_DIR/local-lib)</action>
18 <action type="change_directory">..</action> 29 <action type="change_directory">..</action>
19 <!-- install cpanminus into our new perl environment --> 30 <!-- install cpanminus into our new perl environment -->
20 <action type="download_file">https://raw.github.com/miyagawa/cpanminus/c0c88f71118ecec334d62ba280e883933e7a6d39/cpanm</action> 31 <action type="download_file">https://raw.github.com/miyagawa/cpanminus/c0c88f71118ecec334d62ba280e883933e7a6d39/cpanm</action>
21 <!-- prepanding means that the new install perl binary will be used after the pipe --> 32 <!-- prepending means that the new install perl binary will be used after the pipe -->
22 <action type="shell_command">export PERL5LIB=$INSTALL_DIR/lib/perl5/:$PERL5LIB ; export PATH=$INSTALL_DIR/bin/:$PATH ; cat cpanm | perl - App::cpanminus</action> 33 <action type="shell_command">if [ -d "$TMP_WORK_DIR" ] ; then export HOME=$TMP_WORK_DIR ; else export HOME=`mktemp -d` ; fi ; unset PERL_MB_OPT PERL_MM_OPT ; export PERL5LIB=$INSTALL_DIR/lib/perl5/:$PERL5LIB ; export PATH=$INSTALL_DIR/bin/:$PATH ; cat cpanm | perl - App::cpanminus</action>
23 <action type="shell_command">sed -i.bak -e 's|#!$INSTALL_DIR/bin/|#!/usr/bin/env |' $INSTALL_DIR/bin/*</action> 34 <action type="shell_command">LC_ALL=C sed -i.bak -e 's|#!$INSTALL_DIR/bin/|#!/usr/bin/env |' $INSTALL_DIR/bin/*</action>
24
25 <action type="set_environment"> 35 <action type="set_environment">
26 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> 36 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
27 <environment_variable name="PERL5LIB" action="prepend_to">$INSTALL_DIR/lib/perl5</environment_variable> 37 <environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib/perl5</environment_variable>
28 <environment_variable name="PERL_ROOT_DIR" action="set_to">$INSTALL_DIR</environment_variable> 38 <environment_variable action="set_to" name="PERL_ROOT_DIR">$INSTALL_DIR</environment_variable>
29 <environment_variable name="PERL_LOCALLIB_DIR" action="set_to">$INSTALL_DIR/local-lib</environment_variable> 39 <environment_variable action="set_to" name="PERL_LOCALLIB_DIR">$INSTALL_DIR/local-lib</environment_variable>
30 </action> 40 </action>
31 </actions> 41 </actions>
32 </install> 42 </install>
33 <readme> 43 <readme>
34 Perl 5 is a highly capable, feature-rich programming language with over 25 years of development. 44 Perl 5 is a highly capable, feature-rich programming language with over 25 years of development.