diff test-data/out_wl_single.txt @ 3:475ee31c61d9 draft

planemo upload commit 8da5246c32d60a49e6b6b9027c9adc0a31d4bc5a

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out_wl_single.txt	Sun Feb 25 13:08:17 2018 -0500
@@ -0,0 +1,44 @@
+# 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