comparison tool_dependencies.xml @ 6:03f5951a9855 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_perl_5_18 commit 1486cf95ee83c1c8769d1f8a80fe9342d50fc6da

5:d905bb415eca

    </package>
    <package name="perl" version="5.18.1">
        <install version="1.0">
            <actions>
                <!-- install perl -->
                <action sha256sum="655e11a8ffba8853efcdce568a142c232600ed120ac24aaebb4e6efe74e85b2b" type="download_by_url">
                    https://depot.galaxyproject.org/software/perl/perl_5.18_src_all.tar.gz
                </action>
                <action type="shell_command">./Configure -des -Dprefix=$INSTALL_DIR -Dstartperl='#!/usr/bin/env perl'</action>
                <action type="make_install" />
                <action type="change_directory">..</action>
                <action sha256sum="5c69adb47ab828aa3e8b5be89b88cd49c6a0d0dae2e8b3bca17a9ce699190e7b" type="download_file">
                    http://www.cpan.org/authors/id/A/AP/APEIRON/local-lib-1.008009.tar.gz
                </action>
                <action type="shell_command">tar xfvz local-lib-1.008009.tar.gz</action>
                <action type="change_directory">local-lib-1.008009</action>
                <!-- TODO: Here we need to use the new installed perl binary -->
                <!-- Test whether $TMP_WORK_DIR exists (introduced in galaxy release 15.07).
                If not, fall back to using mktemp. Should be set to HOME=$TEMP_WORK_DIR in the future. -->
                <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=$INSTALL_DIR/local-lib/ --no-manpages</action>
                <action type="shell_command">make install</action>
                <action type="shell_command">export PATH=$INSTALL_DIR/bin/:$PATH; eval $(perl -I$INSTALL_DIR/local-lib/lib/perl5 -Mlocal::lib=$INSTALL_DIR/local-lib)</action>
                <action type="change_directory">..</action>
                <!-- install cpanminus into our new perl environment -->
                <action sha256sum="0b67f5c721259d4185bacdcbc87b835821246fe8ac7ad980d3b1a18ecdd10ff6" type="download_file">
                    https://raw.github.com/miyagawa/cpanminus/c0c88f71118ecec334d62ba280e883933e7a6d39/cpanm
                </action>
                <!-- prepending means that the new install perl binary will be used after the pipe -->
                <action type="shell_command">if [ -d "$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/:$PATH ; cat cpanm | perl - App::cpanminus</action>
                <action type="shell_command">LC_ALL=C sed -i.bak -e 's|#!$INSTALL_DIR/bin/|#!/usr/bin/env |' $INSTALL_DIR/bin/*</action>
                <action type="set_environment">
                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>

6:03f5951a9855

    </package>
    <package name="perl" version="5.18.1">
        <install version="1.0">
            <actions>
                <!-- install perl -->
                <action sha256sum="655e11a8ffba8853efcdce568a142c232600ed120ac24aaebb4e6efe74e85b2b" type="download_by_url">https://depot.galaxyproject.org/software/perl/perl_5.18_src_all.tar.gz</action>
                <action type="shell_command">./Configure -des -Dprefix=$INSTALL_DIR -Dstartperl='#!/usr/bin/env perl'</action>
                <action type="make_install" />
                <action type="change_directory">..</action>
                <action sha256sum="5c69adb47ab828aa3e8b5be89b88cd49c6a0d0dae2e8b3bca17a9ce699190e7b" type="download_file">http://www.cpan.org/authors/id/A/AP/APEIRON/local-lib-1.008009.tar.gz</action>
                <action type="shell_command">tar xfvz local-lib-1.008009.tar.gz</action>
                <action type="change_directory">local-lib-1.008009</action>
                <!-- TODO: Here we need to use the new installed perl binary -->
                <!-- Test whether $TMP_WORK_DIR exists (introduced in galaxy release 15.07).
                If not, fall back to using mktemp. Should be set to HOME=$TEMP_WORK_DIR in the future. -->
                <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=$INSTALL_DIR/local-lib/ --no-manpages</action>
                <action type="shell_command">make install</action>
                <action type="shell_command">export PATH=$INSTALL_DIR/bin/:$PATH; eval $(perl -I$INSTALL_DIR/local-lib/lib/perl5 -Mlocal::lib=$INSTALL_DIR/local-lib)</action>
                <action type="change_directory">..</action>
                <!-- install cpanminus into our new perl environment -->
                <action sha256sum="0b67f5c721259d4185bacdcbc87b835821246fe8ac7ad980d3b1a18ecdd10ff6" type="download_file">https://raw.github.com/miyagawa/cpanminus/c0c88f71118ecec334d62ba280e883933e7a6d39/cpanm</action>
                <!-- prepending means that the new install perl binary will be used after the pipe -->
                <action type="shell_command">if [ -d "$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/:$PATH ; cat cpanm | perl - App::cpanminus</action>
                <action type="shell_command">LC_ALL=C sed -i.bak -e 's|#!$INSTALL_DIR/bin/|#!/usr/bin/env |' $INSTALL_DIR/bin/*</action>
                <action type="set_environment">
                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>