cutadapt output changed from 1.3 to 18 and 1.14
cutadpat component post-proccess failed :
the output no longer contains "Processed reads"
with cutadapt V1.3
cutadapt version 1.3 Command line parameters: -b CTGTCTCTT -b ATACACATCT -b AGATCTAT -b AAGAGACAG --error-rate 0.1 --minimum-length 20 --times 4 --paired-output /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R1_cut.fastq --paired-output /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R1_cut.fastq -o /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R2_cut.fastq /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R2_tmp.fastq /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R1_tmp.fastq Maximum error rate: 10.00% No. of adapters: 4 Processed reads: 4344 Processed bases: 434400 bp (0.4 Mbp) Trimmed reads: 2106 (48.5%) Trimmed bases: 113988 bp (0.1 Mbp) (26.24% of total) Too short reads: 377 (8.7% of processed reads) Too long reads: 0 (0.0% of processed reads) Total time: 0.28 s Time per read: 0.064 ms
with cutadapt 18. and 1.14 : `This is cutadapt 1.8.3 with Python 2.7.2 Command line parameters: -b CTGTCTCTT -b ATACACATCT -b AGATCTAT -b AAGAGACAG --error-rate 0.1 --minimum-length 20 --times 4 --paired-output /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R1_cut.fastq --paired-output /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R1_cut.fastq -o /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R2_cut.fastq /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R2_tmp.fastq /work/ng6-test/jflow_gsalin/work/illumina_matepair/wf000073/CutAdapt_default/B_CAGATC_L004_R1_tmp.fastq Trimming 4 adapters with at most 10.0% errors in paired-end legacy mode ... Finished in 0.18 s (41 us/read; 1.45 M reads/minute).
=== Summary ===
Total read pairs processed: 4,344 Read 1 with adapter: 3,610 (83.1%) Read 2 with adapter: 0 (0.0%) Pairs that were too short: 377 (8.7%) Pairs written (passing filters): 3,967 (91.3%)
Total basepairs processed: 814,063 bp Read 1: 434,400 bp Read 2: 379,663 bp Total written (filtered): 686,031 bp (84.3%) Read 1: 342,864 bp Read 2: 343,167 bp `