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planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit dded837d19aeb3f06b84e5076282cedeeaf713fa
author mvdbeek
date Sun, 22 Jul 2018 13:37:34 -0400
parents 8571d1c719ee
children
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8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
1 # bog standard argparse for 3 possible comma separated lists
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
2 # followed by some silly reverse each row code provided as an example
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
3 # you're supposed to replace it with your great code..
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
4 import argparse
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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5 import copy
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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6
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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7 argp = argparse.ArgumentParser()
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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8 argp.add_argument('--INNAMES', default=None)
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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9 argp.add_argument('--INPATHS', default=None)
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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10 argp.add_argument('--OUTPATH', default=None)
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
11 argp.add_argument('--additional_parameters', default=[], action="append")
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
12 argp.add_argument('otherargs', nargs=argparse.REMAINDER)
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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13 args = argp.parse_args()
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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14 fout = open(args.OUTPATH, 'w')
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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15 sins = open(args.INPATHS.split(',')[0]).readlines()
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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16 for i, sin in enumerate(sins):
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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17 row = sin.strip().split('\t')
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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18 rrow = copy.copy(row)
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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19 lrow = len(row)
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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20 if (lrow > 1):
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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21 for j in range(lrow):
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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22 rrow[j] = row[lrow - j - 1]
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
23 fout.write('\t'.join(rrow))
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
diff changeset
24 fout.write('\n')
8571d1c719ee planemo upload for repository https://github.com/mvdbeek/docker_scriptrunner/ commit ccb01d548a42beeacc01313218bff8c563da6fa9
mvdbeek
parents:
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25 fout.close()