Mercurial > repos > stef > qdnaseq
changeset 19:eefb834376ba draft
Uploaded
| author | stef |
|---|---|
| date | Tue, 17 Jun 2014 04:43:08 -0400 |
| parents | 03251c8d6b46 |
| children | ecc807c0f4f5 |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 5 insertions(+), 2 deletions(-) [+] |
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--- a/tool_dependencies.xml Tue Jun 17 04:36:18 2014 -0400 +++ b/tool_dependencies.xml Tue Jun 17 04:43:08 2014 -0400 @@ -12,11 +12,13 @@ <package name="bioc_qdnaseq" version="1.0.5"> <install version="1.0"> <actions> + <action type="shell_command">echo "[DEBUG] INSTALL DIR: $INSTALL_DIR"</action> + <action type="shell_command">echo "[DEBUG] REPOS INSTALL DIR: $REPOSITORY_INSTALL_DIR"</action> <action type="shell_command">echo "[DEBUG] BEFORE:" && pwd</action> <action type="shell_command">echo "[DEBUG] DIR LISTING:" && ls -l</action> <action type="move_file"> - <source>$INSTALL_DIR/QDNAseq.R</source> + <source>$REPOSITORY_INSTALL_DIR/QDNAseq.R</source> <destination>./</destination> </action> @@ -32,7 +34,8 @@ <environment_variable action="prepend_to" name="R_LIBS">$INSTALL_DIR/bin</environment_variable> </action> <action type="shell_command">echo "[DEBUG] NOW ABOUT TO DOWNLOAD"</action> - <action type="shell_command">wget http://bioconductor.org/packages/release/bioc/src/contrib/QDNAseq_1.0.5.tar.gz</action> + + <action type="download_file">http://bioconductor.org/packages/release/bioc/src/contrib/QDNAseq_1.0.5.tar.gz</action> <action type="shell_command">echo "[DEBUG] WORKING DIR:" && pwd</action> <action type="shell_command">echo "[DEBUG] DIR LISTING:" && ls -l</action>