Mercurial > repos > jjohnson > krona_tools
comparison tool_dependencies.xml @ 8:44673f6f1f6d draft default tip
Set --prefix for install
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Tue, 30 Oct 2012 12:41:10 -0500 |
| parents | de6dceb65136 |
| children |
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| 7:de6dceb65136 | 8:44673f6f1f6d |
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| 12 <!-- The KronaTools tar includes an empty taxonomy dir | 12 <!-- The KronaTools tar includes an empty taxonomy dir |
| 13 <action type="make_directory">$INSTALL_DIR/taxonomy</action> | 13 <action type="make_directory">$INSTALL_DIR/taxonomy</action> |
| 14 <action type="shell_command">cd $INSTALL_DIR && perl install.pl \-\-prefix $INSTALL_DIR \-\-taxonomy $INSTALL_DIR/taxonomy</action> | 14 <action type="shell_command">cd $INSTALL_DIR && perl install.pl \-\-prefix $INSTALL_DIR \-\-taxonomy $INSTALL_DIR/taxonomy</action> |
| 15 --> | 15 --> |
| 16 <!-- With prefix arg "$INSTALL_DIR" installs code into: $INSTALL_DIR/bin/ --> | 16 <!-- With prefix arg "$INSTALL_DIR" installs code into: $INSTALL_DIR/bin/ --> |
| 17 <action type="shell_command">cd $INSTALL_DIR && perl install.pl </action> | 17 <action type="shell_command">cd $INSTALL_DIR && perl install.pl --prefix $INSTALL_DIR</action> |
| 18 <!-- Down load and process NCBI Taxonomy data, the updateTaxonomy.sh script relies on the curl command --> | 18 <!-- Down load and process NCBI Taxonomy data, the updateTaxonomy.sh script relies on the curl command --> |
| 19 <action type="shell_command">cd $INSTALL_DIR && if curl --help 2>i1 > /dev/null; then ./updateTaxonomy.sh; fi</action> | 19 <action type="shell_command">cd $INSTALL_DIR && if curl --help 2>i1 > /dev/null; then ./updateTaxonomy.sh; fi</action> |
| 20 <!-- copy javascript to galaxy/static/krona/ | 20 <!-- copy javascript to galaxy/static/krona/ |
| 21 <action type="shell_command">./deployResources.sh /static/krona</action> | 21 <action type="shell_command">./deployResources.sh /static/krona</action> |
| 22 --> | 22 --> |