Mercurial > repos > fcaramia > somatic_sniper
changeset 19:72c57a6cd428 draft
Uploaded
| author | fcaramia |
|---|---|
| date | Wed, 19 Jun 2013 20:56:35 -0400 |
| parents | b8b74ad9f841 |
| children | 6106d7e4c740 |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 11 insertions(+), 3 deletions(-) [+] |
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--- a/tool_dependencies.xml Wed Jun 19 20:46:14 2013 -0400 +++ b/tool_dependencies.xml Wed Jun 19 20:56:35 2013 -0400 @@ -8,9 +8,17 @@ <action type="shell_command">sed -i.bak 's/-lcurses/-lncurses/' Makefile</action> <action type="shell_command">sed -i.bak 's/-lz -L. -lbam/-lbam -lz -L./' Makefile</action> <action type="shell_command">make</action> - <action type="shell_command">export SAMTOOLS_ROOT=`pwd`</action> + <action type="move_file"> + <source>samtools</source> + <destination>$INSTALL_DIR/bin</destination> + </action> + <action type="set_environment"> + <environment_variable name="SAMTOOLS_ROOT" action="set_to">$INSTALL_DIR/bin</environment_variable> + </action> + <action type="shell_command">echo $SAMTOOLS_ROOT</action> - <action type="download_file">https://github.com/genome/somatic-sniper/archive/master.zip</action> + + <!--action type="download_file">https://github.com/genome/somatic-sniper/archive/master.zip</action> <action type="download_file">https://github.com/genome/build-common/tarball/master</action> <action type="shell_command">unzip master.zip</action> <action type="shell_command">tar -xzvf master</action> @@ -22,7 +30,7 @@ <action type="set_environment"> <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> - </action> + </action--> </actions> </install> <readme>