Mercurial > repos > iuc > umi_tools_extract

view test-data/out_single.log @ 1:79436b3019e9 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload commit c8e46ecad0b1473097517e582ed6c43eb0635b36
author iuc
date Tue, 29 Aug 2017 17:37:07 -0400
parents 418b961e0576
children d1015c2516b7
line wrap: on
line source

# output generated by extract --bc-pattern=XXXNNN --stdin=/tmp/tmpREDhtd/files/003/dataset_3766.dat --stdout /tmp/tmpREDhtd/files/003/dataset_3767.dat --3prime --quality-filter-threshold 10 --quality-encoding phred33 --log=/tmp/tmpREDhtd/files/003/dataset_3768.dat
# job started at Tue Aug 29 14:20:26 2017 on gaius -- 1cfd46e7-5d74-4c25-8cdd-89cf8f41a393
# pid: 21338, system: Linux 4.10.0-33-generic #37-Ubuntu SMP Fri Aug 11 10:55:28 UTC 2017 x86_64
# blacklist                               : None
# compresslevel                           : 6
# error_correct_cell                      : False
# extract_method                          : string
# filter_cell_barcode                     : None
# filter_cell_barcodes                    : False
# log2stderr                              : False
# loglevel                                : 1
# pattern                                 : XXXNNN
# pattern2                                : None
# prime3                                  : True
# quality_encoding                        : phred33
# quality_filter_mask                     : None
# quality_filter_threshold                : 10
# random_seed                             : None
# read2_in                                : None
# read2_out                               : False
# read2_stdout                            : False
# reads_subset                            : None
# reconcile                               : False
# short_help                              : None
# stderr                                  : <_io.TextIOWrapper name='<stderr>' mode='w' encoding='UTF-8'>
# stdin                                   : <_io.TextIOWrapper name='/tmp/tmpREDhtd/files/003/dataset_3766.dat' mode='r' encoding='UTF-8'>
# stdlog                                  : <_io.TextIOWrapper name='/tmp/tmpREDhtd/files/003/dataset_3768.dat' mode='a' encoding='UTF-8'>
# stdout                                  : <_io.TextIOWrapper name='/tmp/tmpREDhtd/files/003/dataset_3767.dat' mode='w' encoding='UTF-8'>
# timeit_file                             : None
# timeit_header                           : None
# timeit_name                             : all
# whitelist                               : None
2017-08-29 14:20:26,493 INFO Starting barcode extraction
2017-08-29 14:20:26,495 INFO Input Reads: 100
2017-08-29 14:20:26,495 INFO Reads output: 72
2017-08-29 14:20:26,495 INFO filtered: umi quality: 28
# job finished in 0 seconds at Tue Aug 29 14:20:26 2017 --  0.75  0.02  0.00  0.00 -- 1cfd46e7-5d74-4c25-8cdd-89cf8f41a393