Job ID = 5720323 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T14:21:15 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 : 24,304,532 reads read : 48,609,064 reads written : 24,304,532 reads 0-length : 24,304,532 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: 00:07:33 24304532 reads; of these: 24304532 (100.00%) were unpaired; of these: 125717 (0.52%) aligned 0 times 21799655 (89.69%) aligned exactly 1 time 2379160 (9.79%) aligned >1 times 99.48% overall alignment rate Time searching: 00:07:33 Overall time: 00:07:33 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 4198538 / 24178815 = 0.1736 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 15 Apr 2020 23:44:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.bam'] # control file = None # effective genome size = 9.00e+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 @ Wed, 15 Apr 2020 23:44:15: #1 read tag files... INFO @ Wed, 15 Apr 2020 23:44:15: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 23:44:21: 1000000 INFO @ Wed, 15 Apr 2020 23:44:26: 2000000 INFO @ Wed, 15 Apr 2020 23:44:31: 3000000 INFO @ Wed, 15 Apr 2020 23:44:36: 4000000 INFO @ Wed, 15 Apr 2020 23:44:41: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 15 Apr 2020 23:44:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.bam'] # control file = None # effective genome size = 9.00e+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 @ Wed, 15 Apr 2020 23:44:45: #1 read tag files... INFO @ Wed, 15 Apr 2020 23:44:45: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 23:44:46: 6000000 INFO @ Wed, 15 Apr 2020 23:44:51: 1000000 INFO @ Wed, 15 Apr 2020 23:44:51: 7000000 INFO @ Wed, 15 Apr 2020 23:44:56: 2000000 INFO @ Wed, 15 Apr 2020 23:44:56: 8000000 INFO @ Wed, 15 Apr 2020 23:45:01: 3000000 INFO @ Wed, 15 Apr 2020 23:45:02: 9000000 INFO @ Wed, 15 Apr 2020 23:45:07: 10000000 INFO @ Wed, 15 Apr 2020 23:45:07: 4000000 INFO @ Wed, 15 Apr 2020 23:45:12: 11000000 INFO @ Wed, 15 Apr 2020 23:45:12: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 15 Apr 2020 23:45:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.bam'] # control file = None # effective genome size = 9.00e+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 @ Wed, 15 Apr 2020 23:45:16: #1 read tag files... INFO @ Wed, 15 Apr 2020 23:45:16: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 23:45:18: 12000000 INFO @ Wed, 15 Apr 2020 23:45:18: 6000000 INFO @ Wed, 15 Apr 2020 23:45:22: 1000000 INFO @ Wed, 15 Apr 2020 23:45:23: 13000000 INFO @ Wed, 15 Apr 2020 23:45:23: 7000000 INFO @ Wed, 15 Apr 2020 23:45:28: 2000000 INFO @ Wed, 15 Apr 2020 23:45:29: 14000000 INFO @ Wed, 15 Apr 2020 23:45:29: 8000000 INFO @ Wed, 15 Apr 2020 23:45:34: 3000000 INFO @ Wed, 15 Apr 2020 23:45:34: 15000000 INFO @ Wed, 15 Apr 2020 23:45:34: 9000000 INFO @ Wed, 15 Apr 2020 23:45:40: 16000000 INFO @ Wed, 15 Apr 2020 23:45:40: 10000000 INFO @ Wed, 15 Apr 2020 23:45:40: 4000000 INFO @ Wed, 15 Apr 2020 23:45:45: 17000000 INFO @ Wed, 15 Apr 2020 23:45:45: 11000000 INFO @ Wed, 15 Apr 2020 23:45:46: 5000000 INFO @ Wed, 15 Apr 2020 23:45:50: 18000000 INFO @ Wed, 15 Apr 2020 23:45:51: 12000000 INFO @ Wed, 15 Apr 2020 23:45:52: 6000000 INFO @ Wed, 15 Apr 2020 23:45:56: 19000000 INFO @ Wed, 15 Apr 2020 23:45:56: 13000000 INFO @ Wed, 15 Apr 2020 23:45:58: 7000000 INFO @ Wed, 15 Apr 2020 23:46:01: #1 tag size is determined as 76 bps INFO @ Wed, 15 Apr 2020 23:46:01: #1 tag size = 76 INFO @ Wed, 15 Apr 2020 23:46:01: #1 total tags in treatment: 19980277 INFO @ Wed, 15 Apr 2020 23:46:01: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 23:46:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 23:46:02: #1 tags after filtering in treatment: 19980277 INFO @ Wed, 15 Apr 2020 23:46:02: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 23:46:02: #1 finished! INFO @ Wed, 15 Apr 2020 23:46:02: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 23:46:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 23:46:02: 14000000 INFO @ Wed, 15 Apr 2020 23:46:03: #2 number of paired peaks: 54 WARNING @ Wed, 15 Apr 2020 23:46:03: Too few paired peaks (54) 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 @ Wed, 15 Apr 2020 23:46:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.05_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/ce10/SRX7971793/SRX7971793.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 15 Apr 2020 23:46:05: 8000000 INFO @ Wed, 15 Apr 2020 23:46:07: 15000000 INFO @ Wed, 15 Apr 2020 23:46:11: 9000000 INFO @ Wed, 15 Apr 2020 23:46:13: 16000000 INFO @ Wed, 15 Apr 2020 23:46:17: 10000000 INFO @ Wed, 15 Apr 2020 23:46:18: 17000000 INFO @ Wed, 15 Apr 2020 23:46:23: 11000000 INFO @ Wed, 15 Apr 2020 23:46:23: 18000000 INFO @ Wed, 15 Apr 2020 23:46:29: 12000000 INFO @ Wed, 15 Apr 2020 23:46:29: 19000000 INFO @ Wed, 15 Apr 2020 23:46:34: #1 tag size is determined as 76 bps INFO @ Wed, 15 Apr 2020 23:46:34: #1 tag size = 76 INFO @ Wed, 15 Apr 2020 23:46:34: #1 total tags in treatment: 19980277 INFO @ Wed, 15 Apr 2020 23:46:34: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 23:46:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 23:46:35: #1 tags after filtering in treatment: 19980277 INFO @ Wed, 15 Apr 2020 23:46:35: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 23:46:35: #1 finished! INFO @ Wed, 15 Apr 2020 23:46:35: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 23:46:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 23:46:35: 13000000 INFO @ Wed, 15 Apr 2020 23:46:36: #2 number of paired peaks: 54 WARNING @ Wed, 15 Apr 2020 23:46:36: Too few paired peaks (54) 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 @ Wed, 15 Apr 2020 23:46:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.10_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/ce10/SRX7971793/SRX7971793.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 15 Apr 2020 23:46:41: 14000000 INFO @ Wed, 15 Apr 2020 23:46:47: 15000000 INFO @ Wed, 15 Apr 2020 23:46:53: 16000000 INFO @ Wed, 15 Apr 2020 23:46:58: 17000000 INFO @ Wed, 15 Apr 2020 23:47:04: 18000000 INFO @ Wed, 15 Apr 2020 23:47:10: 19000000 INFO @ Wed, 15 Apr 2020 23:47:16: #1 tag size is determined as 76 bps INFO @ Wed, 15 Apr 2020 23:47:16: #1 tag size = 76 INFO @ Wed, 15 Apr 2020 23:47:16: #1 total tags in treatment: 19980277 INFO @ Wed, 15 Apr 2020 23:47:16: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 23:47:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 23:47:16: #1 tags after filtering in treatment: 19980277 INFO @ Wed, 15 Apr 2020 23:47:16: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 23:47:16: #1 finished! INFO @ Wed, 15 Apr 2020 23:47:16: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 23:47:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 23:47:17: #2 number of paired peaks: 54 WARNING @ Wed, 15 Apr 2020 23:47:17: Too few paired peaks (54) 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 @ Wed, 15 Apr 2020 23:47:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.20_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/ce10/SRX7971793/SRX7971793.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971793/SRX7971793.20_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。