Mercurial > repos > jasonk > package_metavelvet_sl
changeset 0:9c7337bc4fef draft
Uploaded
| author | jasonk |
|---|---|
| date | Wed, 18 Jan 2017 02:39:20 -0500 |
| parents | |
| children | ee00aca8e4ea |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 74 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Wed Jan 18 02:39:20 2017 -0500 @@ -0,0 +1,74 @@ +<?xml version="1.0"?> +<tool_dependency> + <package name="metavelvet_sl" version="1.0"> + <install version="1.0"> + <actions> + <action type="download_by_url">http://metavelvet.dna.bio.keio.ac.jp/srcSL/MetaVelvetSLv1.0.tar.gz</action> + <action type="shell_command">make MAXKMERLENGTH=128 CATEGORIES=3</action> + <action type="move_file"> + <source>meta-velvete</source> + <destination>$INSTALL_DIR/bin</destination> + </action> + <action type="move_file"> + <source>meta-velvetg</source> + <destination>$INSTALL_DIR/bin</destination> + </action> + </actions> + + <actions> + <action type="download_by_url">http://www.csie.ntu.edu.tw/~cjlin/cgi-bin/libsvm.cgi?+http://www.csie.ntu.edu.tw/~cjlin/libsvm+tar.gz</action> + <action type="change_directory">libsvm*</action> + <action type="shell_command">make</action> + <action type="move_file"> + <source>svm-predict</source> + <destination>$INSTALL_DIR/bin</destination> + </action> + <action type="move_file"> + <source>svm-train</source> + <destination>$INSTALL_DIR/bin</destination> + </action> + + <action type="move_file"> + <source>svm-scale</source> + <destination>$INSTALL_DIR/bin</destination> + </action> + </actions> + + <actions> + <action type="download_by_url">http://metavelvet.dna.bio.keio.ac.jp/srcSL/LearningModelFeatures.tar.gz</action> + <action type="change_directory">LearningModelFeatures</action> + <action type="move_file"> + <source>FeatureExtract.perl</source> + <destination>$INSTALL_DIR/LearningModelFeatures</destination> + </action> + <action type="move_file"> + <source>FeatureExtractPredict.perl</source> + <destination>$INSTALL_DIR/LearningModelFeatures</destination> + </action> + <action type="move_directory_files"> + <source_directory>BLAST_map</source_directory> + <destination_directory>$INSTALL_DIR/LearningModelFeatures/BLAST_map</destination_directory> + </action> + </actions> + + + <actions> + <action type="download_by_url">https://doc-0c-8k-docs.googleusercontent.com/docs/securesc/ha0ro937gcuc7l7deffksulhg5h7mbp1/mlgu4uocfmeebt7gaeiljenel21i71fi/1484719200000/10942893667658680981/*/0B5_0aTIEApvzX093NXFZSnlQUnc?e=download</action> + <action type="change_directory">LibraryPretrainedClassification</action> + <action type="move_directory_files"> + <source_directory>Model</source_directory> + <destination_directory>$INSTALL_DIR/LibraryPretrainedClassification/Model</destination_directory> + </action> + <action type="move_directory_files"> + <source_directory>Range</source_directory> + <destination_directory>$INSTALL_DIR/LibraryPretrainedClassification/Range</destination_directory> + </action> + + <action type="set_environment"> + <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> + </action> + </actions> + + </install> + </package> +</tool_dependency>