Mercurial > repos > jjohnson > augustus_dep
annotate tool_dependencies.xml @ 5:6d288b228c6d draft
tool_dependecy debugging
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Tue, 23 Oct 2012 11:33:18 -0500 |
| parents | 06b5da1079d8 |
| children | fb61d175ab99 |
| rev | line source |
|---|---|
| 0 | 1 <?xml version="1.0"?> |
| 2 <tool_dependency> | |
| 3 | 3 <package name="augustus" version="2.6.1"> |
| 0 | 4 <install version="1.0"> |
| 5 <actions> | |
|
4
06b5da1079d8
Revise tool_dependencies.xml to handle augustus.2.6.1 being packaged in current dir
Jim Johnson <jj@umn.edu>
parents:
3
diff
changeset
|
6 <action type="shell_command">wget http://bioinf.uni-greifswald.de/augustus/binaries/augustus.2.6.1.tar.gz</action> |
|
06b5da1079d8
Revise tool_dependencies.xml to handle augustus.2.6.1 being packaged in current dir
Jim Johnson <jj@umn.edu>
parents:
3
diff
changeset
|
7 <!-- with the first command of with type shell_command a dir will be created with the package name, and we'll operate from there. --> |
| 5 | 8 <action type="shell_command">pwd</action> |
|
4
06b5da1079d8
Revise tool_dependencies.xml to handle augustus.2.6.1 being packaged in current dir
Jim Johnson <jj@umn.edu>
parents:
3
diff
changeset
|
9 <action type="shell_command">tar zxf ../augustus.2.6.1.tar.gz</action> |
| 0 | 10 <action type="shell_command">make</action> |
| 2 | 11 <action type="move_directory_files"> |
| 12 <source_directory>bin</source_directory> | |
| 13 <destination_directory>$INSTALL_DIR/bin</destination_directory> | |
| 14 </action> | |
| 15 <action type="move_directory_files"> | |
| 16 <source_directory>scripts</source_directory> | |
| 17 <destination_directory>$INSTALL_DIR/scripts</destination_directory> | |
| 18 </action> | |
| 19 <action type="move_directory_files"> | |
| 20 <source_directory>config</source_directory> | |
| 21 <destination_directory>$INSTALL_DIR/config</destination_directory> | |
| 22 </action> | |
| 0 | 23 <action type="set_environment"> |
| 3 | 24 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/scripts</environment_variable> |
| 25 </action> | |
| 26 <action type="set_environment"> | |
| 0 | 27 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> |
| 28 </action> | |
| 29 <action type="set_environment"> | |
| 30 <environment_variable name="AUGUSTUS_CONFIG_PATH" action="set_to">$INSTALL_DIR/config</environment_variable> | |
| 31 </action> | |
| 32 </actions> | |
| 33 </install> | |
| 34 <readme>http://augustus.gobics.de/binaries/README.TXT</readme> | |
| 35 </package> | |
| 36 </tool_dependency> | |
| 37 |