Mercurial > repos > iuc > package_trnascan_1_3_1
changeset 2:a3c3535a61a5 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_trnascan_1_3_1 commit 025696892784ba9fd07404ce4d21f3dca4ac1a1e-dirty
| author | iuc |
|---|---|
| date | Fri, 17 Jul 2015 14:18:37 -0400 |
| parents | a3fb2752c340 |
| children | |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 4 insertions(+), 3 deletions(-) [+] |
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--- a/tool_dependencies.xml Tue Feb 25 12:34:44 2014 -0500 +++ b/tool_dependencies.xml Fri Jul 17 14:18:37 2015 -0400 @@ -7,12 +7,13 @@ <action type="make_directory">$INSTALL_DIR/lib/tRNAscan-SE/</action> <action type="make_directory">$INSTALL_DIR/man/</action> <!-- replacing the hardcoded pathvariables with the real ones --> - <action type="shell_command">sed 's%^BINDIR = .*%BINDIR = $INSTALL_DIR/bin/%' Makefile | sed 's%^LIBDIR = .*%LIBDIR = $INSTALL_DIR/lib/tRNAscan-SE/%' | sed 's%^MANDIR = .*%MANDIR = $INSTALL_DIR/man%' > Makefile_new</action> - <action type="shell_command">rm Makefile && mv Makefile_new Makefile</action> + <action type="shell_command">sed -i.bak -e "s|^BINDIR = .*|BINDIR = $INSTALL_DIR/bin/|" Makefile</action> + <action type="shell_command">sed -i.bak -e "s|^LIBDIR = .*|LIBDIR = $INSTALL_DIR/lib/tRNAscan-SE/|" Makefile</action> + <action type="shell_command">sed -i.bak -e "s|^MANDIR = .*|MANDIR = $INSTALL_DIR/man|" Makefile</action> <action type="make_install"/> <!-- for some reason infernal needs to be directly under the bin/ from tRNAScan --> - <action type="shell_command">wget ftp://selab.janelia.org/pub/software/infernal/infernal-1.0.2.tar.gz</action> + <action type="download_file">ftp://selab.janelia.org/pub/software/infernal/infernal-1.0.2.tar.gz</action> <action type="shell_command">tar xfvz infernal-1.0.2.tar.gz</action> <action type="shell_command">cd infernal-1.0.2 && ./configure --prefix=$INSTALL_DIR && make && make install</action> <action type="set_environment">