| Previous changeset 25:88444ff7009f (2014-06-20) Next changeset 27:ae37c0fd6590 (2014-06-20) |
|
Commit message:
Uploaded |
|
modified:
tool_dependencies.xml |
| b |
| diff -r 88444ff7009f -r 47817c968422 tool_dependencies.xml --- a/tool_dependencies.xml Fri Jun 20 08:59:35 2014 -0400 +++ b/tool_dependencies.xml Fri Jun 20 10:28:26 2014 -0400 |
| b |
| @@ -9,6 +9,12 @@ <!-- <action type="shell_command">git clone https://github.com/genome/pindel.git pindel</action> --> <action type="download_by_url" target_filename="pindel-master.zip">https://github.com/genome/pindel/archive/master.zip</action> <action type="shell_command">ls ..</action> + <action type="shell_command"> + echo "$samtools + samtools + $PATH + $INSTALL_DIR" + </action> <!-- <action type="shell_command">ls</action> --> <!-- <action type="move_directory_files"> <source_directory>.</source_directory> @@ -25,7 +31,7 @@ COLOWOBD15_TIME=80 SIM1CHRVS20305_TIME=60" > Makefile.local </action> - <action type="shell_command">make SAMTOOLS=~/samtools THREADS=2</action> + <action type="shell_command">make SAMTOOLS=$samtools THREADS=2</action> <action type="move_file"> <source>pindel</source> <destination>$INSTALL_DIR/</destination> |