Job ID = 2010330 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T13:06:57 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 21,760,540 reads read : 21,760,540 reads written : 21,760,540 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1009213.sra.cache’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:06 21760540 reads; of these: 21760540 (100.00%) were unpaired; of these: 5285444 (24.29%) aligned 0 times 13968586 (64.19%) aligned exactly 1 time 2506510 (11.52%) aligned >1 times 75.71% overall alignment rate Time searching: 00:07:06 Overall time: 00:07:06 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 8123795 / 16475096 = 0.4931 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Fri, 05 Jul 2019 22:22:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 22:22:48: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:22:48: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:22:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 22:22:49: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:22:49: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:22:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 22:22:50: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:22:50: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:22:58: 1000000 INFO @ Fri, 05 Jul 2019 22:22:59: 1000000 INFO @ Fri, 05 Jul 2019 22:23:02: 1000000 INFO @ Fri, 05 Jul 2019 22:23:08: 2000000 INFO @ Fri, 05 Jul 2019 22:23:09: 2000000 INFO @ Fri, 05 Jul 2019 22:23:14: 2000000 INFO @ Fri, 05 Jul 2019 22:23:17: 3000000 INFO @ Fri, 05 Jul 2019 22:23:19: 3000000 INFO @ Fri, 05 Jul 2019 22:23:25: 3000000 INFO @ Fri, 05 Jul 2019 22:23:26: 4000000 INFO @ Fri, 05 Jul 2019 22:23:28: 4000000 INFO @ Fri, 05 Jul 2019 22:23:35: 5000000 INFO @ Fri, 05 Jul 2019 22:23:37: 4000000 INFO @ Fri, 05 Jul 2019 22:23:37: 5000000 INFO @ Fri, 05 Jul 2019 22:23:45: 6000000 INFO @ Fri, 05 Jul 2019 22:23:46: 6000000 INFO @ Fri, 05 Jul 2019 22:23:48: 5000000 INFO @ Fri, 05 Jul 2019 22:23:54: 7000000 INFO @ Fri, 05 Jul 2019 22:23:56: 7000000 INFO @ Fri, 05 Jul 2019 22:23:59: 6000000 INFO @ Fri, 05 Jul 2019 22:24:03: 8000000 INFO @ Fri, 05 Jul 2019 22:24:05: 8000000 INFO @ Fri, 05 Jul 2019 22:24:06: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 22:24:06: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 22:24:06: #1 total tags in treatment: 8351301 INFO @ Fri, 05 Jul 2019 22:24:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:24:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:24:06: #1 tags after filtering in treatment: 8351301 INFO @ Fri, 05 Jul 2019 22:24:06: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:24:06: #1 finished! INFO @ Fri, 05 Jul 2019 22:24:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:24:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:24:06: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:24:06: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 22:24:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:24:08: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 22:24:08: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 22:24:08: #1 total tags in treatment: 8351301 INFO @ Fri, 05 Jul 2019 22:24:08: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:24:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:24:08: #1 tags after filtering in treatment: 8351301 INFO @ Fri, 05 Jul 2019 22:24:08: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:24:08: #1 finished! INFO @ Fri, 05 Jul 2019 22:24:08: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:24:08: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:24:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:24:09: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 22:24:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:24:09: 7000000 INFO @ Fri, 05 Jul 2019 22:24:20: 8000000 INFO @ Fri, 05 Jul 2019 22:24:24: #1 tag size is determined as 100 bps INFO @ Fri, 05 Jul 2019 22:24:24: #1 tag size = 100 INFO @ Fri, 05 Jul 2019 22:24:24: #1 total tags in treatment: 8351301 INFO @ Fri, 05 Jul 2019 22:24:24: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:24:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:24:24: #1 tags after filtering in treatment: 8351301 INFO @ Fri, 05 Jul 2019 22:24:24: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:24:24: #1 finished! INFO @ Fri, 05 Jul 2019 22:24:24: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:24:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:24:25: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 22:24:25: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 22:24:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX363331/SRX363331.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。