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view test-data/out_wl_single.txt @ 0:8db56d2f8b72 draft

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planemo upload commit c79a5f4a05156bb2a6035a844aa9ad8f0e59ecb5
author iuc
date Thu, 21 Jun 2018 15:20:14 -0400
parents
children 70cb5527defb
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# output generated by whitelist --bc-pattern=CCCCCCCCNNNNNNNN --subset-reads=0 --stdin=/tmp/tmpibtvD6/files/000/dataset_1.dat --method=reads --plot-prefix=OUT --3prime
# job started at Sun Feb 25 10:49:56 2018 on bag -- cb0db520-8a4e-4040-aa88-93efc0718fa8
# pid: 2217, system: Linux 4.13.0-32-generic #35-Ubuntu SMP Thu Jan 25 09:13:46 UTC 2018 x86_64
# blacklist_tsv                           : None
# cell_number                             : False
# compresslevel                           : 6
# error_correct_threshold                 : 1
# expect_cells                            : False
# extract_method                          : string
# filter_cell_barcodes                    : False
# log2stderr                              : False
# loglevel                                : 1
# method                                  : reads
# pattern                                 : CCCCCCCCNNNNNNNN
# pattern2                                : None
# plot_prefix                             : OUT
# prime3                                  : True
# random_seed                             : None
# read2_in                                : None
# short_help                              : None
# stderr                                  : <_io.TextIOWrapper name='<stderr>' mode='w' encoding='UTF-8'>
# stdin                                   : <_io.TextIOWrapper name='/tmp/tmpibtvD6/files/000/dataset_1.dat' mode='r' encoding='UTF-8'>
# stdlog                                  : <_io.TextIOWrapper name='<stdout>' mode='w' encoding='UTF-8'>
# stdout                                  : <_io.TextIOWrapper name='<stdout>' mode='w' encoding='UTF-8'>
# subset_reads                            : 0
# timeit_file                             : None
# timeit_header                           : None
# timeit_name                             : all
# whitelist_tsv                           : None
## 2018-02-25 10:49:56,061 INFO Starting barcode extraction
## 2018-02-25 10:49:56,061 INFO Parsed 0 reads
## 2018-02-25 10:49:56,062 INFO Starting - whitelist determination
## 2018-02-25 10:49:57,383 INFO Finished - whitelist determination
## 2018-02-25 10:49:57,383 INFO Starting - finding putative error cell barcodes
## 2018-02-25 10:49:57,383 INFO Finished - finding putative error cell barcodes
## 2018-02-25 10:49:57,383 INFO Writing out whitelist
AAAAAAAA	AAAAAACA,AAACAAAA,AATAAAAA	3	1,1,1
ACAAAAAC		2	
ACAACAAA		2	
TTACTTAA	TTACTAAA	2	1
## 2018-02-25 10:49:57,383 INFO Parsed 100 reads
## 2018-02-25 10:49:57,383 INFO 100 reads matched the barcode pattern
## 2018-02-25 10:49:57,383 INFO Found 95 unique cell barcodes
# job finished in 1 seconds at Sun Feb 25 10:49:57 2018 --  2.25  0.06  0.00  0.00 -- cb0db520-8a4e-4040-aa88-93efc0718fa8