Mercurial > repos > nilshomer > srma_wrapper

annotate srma_wrapper_code.py @ 0:9d60d2fce247 default tip

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Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
author nilshomer
date Tue, 07 Jun 2011 17:43:07 -0400
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9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
nilshomer
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1 import os
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
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2
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
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3 def exec_before_job(app, inp_data, out_data, param_dict, tool):
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
nilshomer
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4 try:
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
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5 refFile = param_dict[ 'refGenomeSource' ][ 'index' ].value
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
nilshomer
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6 except:
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
nilshomer
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7 try:
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
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8 refFile = param_dict[ 'refGenomeSource' ][ 'ownFile' ].dbkey
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
nilshomer
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9 except:
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
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10 refFile = '?'
9d60d2fce247 Migrated tool version 0.1.1 from old tool shed archive to new tool shed repository
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11 dbkey = os.path.split( refFile )[1].split( '.' )[0]