Mercurial > repos > iuc > package_r_3_2_1

diff tool_dependencies.xml @ 5:9bf8af8b27e8 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_r_3_2_1 commit 763aa3cc70b84527b6a91c60dfca4d5af0eb96c4
author iuc
date Mon, 09 Nov 2015 08:52:27 -0500
parents e36e1db5e729
children 08586b0d0d58
line wrap: on
line diff
--- a/tool_dependencies.xml	Sat Oct 10 08:20:29 2015 -0400
+++ b/tool_dependencies.xml	Mon Nov 09 08:52:27 2015 -0500
@@ -9,6 +9,20 @@
                         <source_directory>.</source_directory>
                         <destination_directory>$INSTALL_DIR</destination_directory>
                     </action>
+                    <action type="shell_command">
+                        command -v gfortran || return 0
+                        BUNDLED_LGF_CANON=$INSTALL_DIR/lib/libgfortran.so.3.0.0 &amp;&amp;
+                        BUNDLED_LGF_VERS=`objdump -p $BUNDLED_LGF_CANON | grep GFORTRAN_1 | sed -r 's/.*GFORTRAN_1\.([0-9])+/\1/' | sort -n | tail -1` &amp;&amp;
+                        echo 'program test; end program test' &gt; test.f90 &amp;&amp;
+                        gfortran -o test test.f90 &amp;&amp;
+                        LGF=`ldd test | grep libgfortran | awk '{print $3}'` &amp;&amp;
+                        LGF_CANON=`readlink -f $LGF` &amp;&amp;
+                        LGF_VERS=`objdump -p $LGF_CANON | grep GFORTRAN_1 | sed -r 's/.*GFORTRAN_1\.([0-9])+/\1/' | sort -n | tail -1` &amp;&amp;
+                        if [ $LGF_VERS -gt $BUNDLED_LGF_VERS ]; then
+                            cp -p $BUNDLED_LGF_CANON ${BUNDLED_LGF_CANON}.bundled &amp;&amp;
+                            cp -p $LGF_CANON $BUNDLED_LGF_CANON
+                        fi
+                    </action>
                     <action type="set_environment">
                         <environment_variable action="set_to" name="TCL_LIBRARY">$INSTALL_DIR/lib/libtcl8.4.so</environment_variable>
                         <environment_variable action="set_to" name="TK_LIBRARY">$INSTALL_DIR/lib/libtk8.4.so</environment_variable>
@@ -26,7 +40,7 @@
                         <repository changeset_revision="ac6ef08bf0e6" name="package_libpng_1_6_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
                     </package>
                     <package name="cairo" version="1.12.14">
-                        <repository changeset_revision="8181dc284f85" name="package_cairo_1_12_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+                        <repository changeset_revision="19c3c9a4ac33" name="package_cairo_1_12_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
                     </package>
                     <package name="pixman" version="0.32.6">
                         <repository changeset_revision="2db67636b074" name="package_pixman_0_32_6" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
@@ -38,7 +52,7 @@
                         <repository changeset_revision="7fae9c4b2d10" name="package_ncurses_6_0" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
                     </package>
                     <package name="fontconfig" version="2.11.1">
-                        <repository changeset_revision="204a8c713d82" name="package_fontconfig_2_11_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+                        <repository changeset_revision="10d316c80072" name="package_fontconfig_2_11_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
                     </package>
                     <action type="set_environment_for_install">
                         <repository changeset_revision="caf1e20aac98" name="package_readline_6_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
@@ -47,7 +61,7 @@
                         <repository changeset_revision="ac6ef08bf0e6" name="package_libpng_1_6_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
                             <package name="libpng" version="1.6.7" />
                         </repository>
-                        <repository changeset_revision="8181dc284f85" name="package_cairo_1_12_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                        <repository changeset_revision="19c3c9a4ac33" name="package_cairo_1_12_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
                             <package name="cairo" version="1.12.14" />
                         </repository>
                         <repository changeset_revision="2db67636b074" name="package_pixman_0_32_6" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
@@ -59,7 +73,7 @@
                         <repository changeset_revision="7fae9c4b2d10" name="package_ncurses_6_0" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
                             <package name="ncurses" version="6.0" />
                         </repository>
-                        <repository changeset_revision="204a8c713d82" name="package_fontconfig_2_11_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                        <repository changeset_revision="10d316c80072" name="package_fontconfig_2_11_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu">
                             <package name="fontconfig" version="2.11.1" />
                         </repository>
                     </action>