Job ID = 2009765 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2019-07-05T11:21:31 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2019-07-05T11:34:06 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 : 65,239,340 reads read : 65,239,340 reads written : 65,239,340 rm: cannot remove ‘[DSE]RR*’: 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: 00:11:30 65239340 reads; of these: 65239340 (100.00%) were unpaired; of these: 22467985 (34.44%) aligned 0 times 34449820 (52.81%) aligned exactly 1 time 8321535 (12.76%) aligned >1 times 65.56% overall alignment rate Time searching: 00:11:30 Overall time: 00:11:31 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 20 files... [bam_rmdupse_core] 28980628 / 42771355 = 0.6776 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 21:06:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.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 21:06:53: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:06:53: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:06:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.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 21:06:54: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:06:54: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:06:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.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 21:06:55: #1 read tag files... INFO @ Fri, 05 Jul 2019 21:06:55: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 21:07:01: 1000000 INFO @ Fri, 05 Jul 2019 21:07:02: 1000000 INFO @ Fri, 05 Jul 2019 21:07:03: 1000000 INFO @ Fri, 05 Jul 2019 21:07:09: 2000000 INFO @ Fri, 05 Jul 2019 21:07:10: 2000000 INFO @ Fri, 05 Jul 2019 21:07:11: 2000000 INFO @ Fri, 05 Jul 2019 21:07:17: 3000000 INFO @ Fri, 05 Jul 2019 21:07:18: 3000000 INFO @ Fri, 05 Jul 2019 21:07:19: 3000000 INFO @ Fri, 05 Jul 2019 21:07:25: 4000000 INFO @ Fri, 05 Jul 2019 21:07:26: 4000000 INFO @ Fri, 05 Jul 2019 21:07:26: 4000000 INFO @ Fri, 05 Jul 2019 21:07:32: 5000000 INFO @ Fri, 05 Jul 2019 21:07:34: 5000000 INFO @ Fri, 05 Jul 2019 21:07:34: 5000000 INFO @ Fri, 05 Jul 2019 21:07:40: 6000000 INFO @ Fri, 05 Jul 2019 21:07:42: 6000000 INFO @ Fri, 05 Jul 2019 21:07:42: 6000000 INFO @ Fri, 05 Jul 2019 21:07:48: 7000000 INFO @ Fri, 05 Jul 2019 21:07:50: 7000000 INFO @ Fri, 05 Jul 2019 21:07:50: 7000000 INFO @ Fri, 05 Jul 2019 21:07:55: 8000000 INFO @ Fri, 05 Jul 2019 21:07:57: 8000000 INFO @ Fri, 05 Jul 2019 21:07:58: 8000000 INFO @ Fri, 05 Jul 2019 21:08:03: 9000000 INFO @ Fri, 05 Jul 2019 21:08:05: 9000000 INFO @ Fri, 05 Jul 2019 21:08:05: 9000000 INFO @ Fri, 05 Jul 2019 21:08:11: 10000000 INFO @ Fri, 05 Jul 2019 21:08:13: 10000000 INFO @ Fri, 05 Jul 2019 21:08:13: 10000000 INFO @ Fri, 05 Jul 2019 21:08:19: 11000000 INFO @ Fri, 05 Jul 2019 21:08:21: 11000000 INFO @ Fri, 05 Jul 2019 21:08:21: 11000000 INFO @ Fri, 05 Jul 2019 21:08:26: 12000000 INFO @ Fri, 05 Jul 2019 21:08:28: 12000000 INFO @ Fri, 05 Jul 2019 21:08:29: 12000000 INFO @ Fri, 05 Jul 2019 21:08:34: 13000000 INFO @ Fri, 05 Jul 2019 21:08:36: 13000000 INFO @ Fri, 05 Jul 2019 21:08:36: 13000000 INFO @ Fri, 05 Jul 2019 21:08:40: #1 tag size is determined as 59 bps INFO @ Fri, 05 Jul 2019 21:08:40: #1 tag size = 59 INFO @ Fri, 05 Jul 2019 21:08:40: #1 total tags in treatment: 13790727 INFO @ Fri, 05 Jul 2019 21:08:40: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:08:40: #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 21:08:40: #1 tags after filtering in treatment: 13790727 INFO @ Fri, 05 Jul 2019 21:08:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:08:40: #1 finished! INFO @ Fri, 05 Jul 2019 21:08:40: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:08:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:08:41: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:08:41: 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 21:08:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.05_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/SRX149465/SRX149465.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:08:42: #1 tag size is determined as 59 bps INFO @ Fri, 05 Jul 2019 21:08:42: #1 tag size = 59 INFO @ Fri, 05 Jul 2019 21:08:42: #1 total tags in treatment: 13790727 INFO @ Fri, 05 Jul 2019 21:08:42: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:08:42: #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 21:08:43: #1 tags after filtering in treatment: 13790727 INFO @ Fri, 05 Jul 2019 21:08:43: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:08:43: #1 finished! INFO @ Fri, 05 Jul 2019 21:08:43: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:08:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:08:43: #1 tag size is determined as 59 bps INFO @ Fri, 05 Jul 2019 21:08:43: #1 tag size = 59 INFO @ Fri, 05 Jul 2019 21:08:43: #1 total tags in treatment: 13790727 INFO @ Fri, 05 Jul 2019 21:08:43: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 21:08:43: #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 21:08:43: #1 tags after filtering in treatment: 13790727 INFO @ Fri, 05 Jul 2019 21:08:43: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 21:08:43: #1 finished! INFO @ Fri, 05 Jul 2019 21:08:43: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 21:08:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 21:08:44: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:08:44: 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 21:08:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.20_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/SRX149465/SRX149465.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 21:08:44: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 21:08:44: 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 21:08:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.10_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/SRX149465/SRX149465.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX149465/SRX149465.10_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。