Job ID = 2009851 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:10:16 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 ) 2019-07-05T11:10:16 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 ) 2019-07-05T11:10:16 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 : 46,878,842 reads read : 46,878,842 reads written : 46,878,842 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR585731.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: 00:12:18 46878842 reads; of these: 46878842 (100.00%) were unpaired; of these: 11342033 (24.19%) aligned 0 times 31701181 (67.62%) aligned exactly 1 time 3835628 (8.18%) aligned >1 times 75.81% overall alignment rate Time searching: 00:12:18 Overall time: 00:12:18 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 12 files... [bam_rmdupse_core] 23124714 / 35536809 = 0.6507 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 20:30:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.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 20:30:48: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:30:48: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:30:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.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 20:30:49: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:30:49: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:30:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.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 20:30:50: #1 read tag files... INFO @ Fri, 05 Jul 2019 20:30:50: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 20:30:56: 1000000 INFO @ Fri, 05 Jul 2019 20:30:56: 1000000 INFO @ Fri, 05 Jul 2019 20:30:57: 1000000 INFO @ Fri, 05 Jul 2019 20:31:02: 2000000 INFO @ Fri, 05 Jul 2019 20:31:03: 2000000 INFO @ Fri, 05 Jul 2019 20:31:04: 2000000 INFO @ Fri, 05 Jul 2019 20:31:08: 3000000 INFO @ Fri, 05 Jul 2019 20:31:10: 3000000 INFO @ Fri, 05 Jul 2019 20:31:11: 3000000 INFO @ Fri, 05 Jul 2019 20:31:15: 4000000 INFO @ Fri, 05 Jul 2019 20:31:16: 4000000 INFO @ Fri, 05 Jul 2019 20:31:18: 4000000 INFO @ Fri, 05 Jul 2019 20:31:21: 5000000 INFO @ Fri, 05 Jul 2019 20:31:23: 5000000 INFO @ Fri, 05 Jul 2019 20:31:26: 5000000 INFO @ Fri, 05 Jul 2019 20:31:28: 6000000 INFO @ Fri, 05 Jul 2019 20:31:30: 6000000 INFO @ Fri, 05 Jul 2019 20:31:33: 6000000 INFO @ Fri, 05 Jul 2019 20:31:35: 7000000 INFO @ Fri, 05 Jul 2019 20:31:36: 7000000 INFO @ Fri, 05 Jul 2019 20:31:40: 7000000 INFO @ Fri, 05 Jul 2019 20:31:41: 8000000 INFO @ Fri, 05 Jul 2019 20:31:43: 8000000 INFO @ Fri, 05 Jul 2019 20:31:47: 8000000 INFO @ Fri, 05 Jul 2019 20:31:48: 9000000 INFO @ Fri, 05 Jul 2019 20:31:49: 9000000 INFO @ Fri, 05 Jul 2019 20:31:54: 10000000 INFO @ Fri, 05 Jul 2019 20:31:55: 9000000 INFO @ Fri, 05 Jul 2019 20:31:56: 10000000 INFO @ Fri, 05 Jul 2019 20:32:01: 11000000 INFO @ Fri, 05 Jul 2019 20:32:02: 10000000 INFO @ Fri, 05 Jul 2019 20:32:03: 11000000 INFO @ Fri, 05 Jul 2019 20:32:07: 12000000 INFO @ Fri, 05 Jul 2019 20:32:09: 12000000 INFO @ Fri, 05 Jul 2019 20:32:09: 11000000 INFO @ Fri, 05 Jul 2019 20:32:10: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 20:32:10: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 20:32:10: #1 total tags in treatment: 12412095 INFO @ Fri, 05 Jul 2019 20:32:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:32:10: #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 20:32:10: #1 tags after filtering in treatment: 12412095 INFO @ Fri, 05 Jul 2019 20:32:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:32:10: #1 finished! INFO @ Fri, 05 Jul 2019 20:32:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:32:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:32:11: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:32:11: 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 20:32:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.10_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/SRX193510/SRX193510.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:32:11: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 20:32:11: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 20:32:11: #1 total tags in treatment: 12412095 INFO @ Fri, 05 Jul 2019 20:32:11: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:32:11: #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 20:32:12: #1 tags after filtering in treatment: 12412095 INFO @ Fri, 05 Jul 2019 20:32:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:32:12: #1 finished! INFO @ Fri, 05 Jul 2019 20:32:12: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:32:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:32:13: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:32:13: 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 20:32:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.20_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/SRX193510/SRX193510.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 20:32:16: 12000000 INFO @ Fri, 05 Jul 2019 20:32:19: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 20:32:19: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 20:32:19: #1 total tags in treatment: 12412095 INFO @ Fri, 05 Jul 2019 20:32:19: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 20:32:19: #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 20:32:19: #1 tags after filtering in treatment: 12412095 INFO @ Fri, 05 Jul 2019 20:32:19: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 20:32:19: #1 finished! INFO @ Fri, 05 Jul 2019 20:32:19: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 20:32:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 20:32:20: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 20:32:20: 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 20:32:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.05_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/SRX193510/SRX193510.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX193510/SRX193510.05_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。