Job ID = 5720335 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T14:36:35 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 : 32,864,387 reads read : 32,864,387 reads written : 32,864,387 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: 00:10:05 32864387 reads; of these: 32864387 (100.00%) were unpaired; of these: 701783 (2.14%) aligned 0 times 26966525 (82.05%) aligned exactly 1 time 5196079 (15.81%) aligned >1 times 97.86% overall alignment rate Time searching: 00:10:05 Overall time: 00:10:05 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 16 files... [bam_rmdupse_core] 4084724 / 32162604 = 0.1270 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 @ Thu, 16 Apr 2020 00:13:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.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 @ Thu, 16 Apr 2020 00:13:40: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:13:40: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:13:46: 1000000 INFO @ Thu, 16 Apr 2020 00:13:52: 2000000 INFO @ Thu, 16 Apr 2020 00:13:58: 3000000 INFO @ Thu, 16 Apr 2020 00:14:04: 4000000 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 @ Thu, 16 Apr 2020 00:14:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.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 @ Thu, 16 Apr 2020 00:14:10: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:14:10: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:14:10: 5000000 INFO @ Thu, 16 Apr 2020 00:14:16: 1000000 INFO @ Thu, 16 Apr 2020 00:14:17: 6000000 INFO @ Thu, 16 Apr 2020 00:14:23: 2000000 INFO @ Thu, 16 Apr 2020 00:14:23: 7000000 INFO @ Thu, 16 Apr 2020 00:14:30: 8000000 INFO @ Thu, 16 Apr 2020 00:14:30: 3000000 INFO @ Thu, 16 Apr 2020 00:14:36: 9000000 INFO @ Thu, 16 Apr 2020 00:14:36: 4000000 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 @ Thu, 16 Apr 2020 00:14:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.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 @ Thu, 16 Apr 2020 00:14:40: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:14:40: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:14:43: 10000000 INFO @ Thu, 16 Apr 2020 00:14:43: 5000000 INFO @ Thu, 16 Apr 2020 00:14:48: 1000000 INFO @ Thu, 16 Apr 2020 00:14:51: 11000000 INFO @ Thu, 16 Apr 2020 00:14:51: 6000000 INFO @ Thu, 16 Apr 2020 00:14:56: 2000000 INFO @ Thu, 16 Apr 2020 00:14:58: 7000000 INFO @ Thu, 16 Apr 2020 00:14:59: 12000000 INFO @ Thu, 16 Apr 2020 00:15:04: 3000000 INFO @ Thu, 16 Apr 2020 00:15:05: 8000000 INFO @ Thu, 16 Apr 2020 00:15:07: 13000000 INFO @ Thu, 16 Apr 2020 00:15:12: 4000000 INFO @ Thu, 16 Apr 2020 00:15:12: 9000000 INFO @ Thu, 16 Apr 2020 00:15:14: 14000000 INFO @ Thu, 16 Apr 2020 00:15:19: 10000000 INFO @ Thu, 16 Apr 2020 00:15:20: 5000000 INFO @ Thu, 16 Apr 2020 00:15:21: 15000000 INFO @ Thu, 16 Apr 2020 00:15:26: 11000000 INFO @ Thu, 16 Apr 2020 00:15:28: 16000000 INFO @ Thu, 16 Apr 2020 00:15:28: 6000000 INFO @ Thu, 16 Apr 2020 00:15:34: 12000000 INFO @ Thu, 16 Apr 2020 00:15:35: 17000000 INFO @ Thu, 16 Apr 2020 00:15:36: 7000000 INFO @ Thu, 16 Apr 2020 00:15:41: 13000000 INFO @ Thu, 16 Apr 2020 00:15:41: 18000000 INFO @ Thu, 16 Apr 2020 00:15:43: 8000000 INFO @ Thu, 16 Apr 2020 00:15:48: 14000000 INFO @ Thu, 16 Apr 2020 00:15:48: 19000000 INFO @ Thu, 16 Apr 2020 00:15:51: 9000000 INFO @ Thu, 16 Apr 2020 00:15:55: 15000000 INFO @ Thu, 16 Apr 2020 00:15:55: 20000000 INFO @ Thu, 16 Apr 2020 00:15:59: 10000000 INFO @ Thu, 16 Apr 2020 00:16:02: 16000000 INFO @ Thu, 16 Apr 2020 00:16:02: 21000000 INFO @ Thu, 16 Apr 2020 00:16:06: 11000000 INFO @ Thu, 16 Apr 2020 00:16:09: 17000000 INFO @ Thu, 16 Apr 2020 00:16:09: 22000000 INFO @ Thu, 16 Apr 2020 00:16:14: 12000000 INFO @ Thu, 16 Apr 2020 00:16:16: 18000000 INFO @ Thu, 16 Apr 2020 00:16:16: 23000000 INFO @ Thu, 16 Apr 2020 00:16:22: 13000000 INFO @ Thu, 16 Apr 2020 00:16:23: 24000000 INFO @ Thu, 16 Apr 2020 00:16:23: 19000000 INFO @ Thu, 16 Apr 2020 00:16:29: 14000000 INFO @ Thu, 16 Apr 2020 00:16:30: 25000000 INFO @ Thu, 16 Apr 2020 00:16:30: 20000000 INFO @ Thu, 16 Apr 2020 00:16:36: 26000000 INFO @ Thu, 16 Apr 2020 00:16:37: 15000000 INFO @ Thu, 16 Apr 2020 00:16:37: 21000000 INFO @ Thu, 16 Apr 2020 00:16:44: 22000000 INFO @ Thu, 16 Apr 2020 00:16:44: 27000000 INFO @ Thu, 16 Apr 2020 00:16:44: 16000000 INFO @ Thu, 16 Apr 2020 00:16:51: 23000000 INFO @ Thu, 16 Apr 2020 00:16:51: 28000000 INFO @ Thu, 16 Apr 2020 00:16:52: 17000000 INFO @ Thu, 16 Apr 2020 00:16:52: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:16:52: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:16:52: #1 total tags in treatment: 28077880 INFO @ Thu, 16 Apr 2020 00:16:52: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:16:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:16:53: #1 tags after filtering in treatment: 28077880 INFO @ Thu, 16 Apr 2020 00:16:53: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:16:53: #1 finished! INFO @ Thu, 16 Apr 2020 00:16:53: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:16:53: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:16:54: #2 number of paired peaks: 93 WARNING @ Thu, 16 Apr 2020 00:16:54: Too few paired peaks (93) 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 @ Thu, 16 Apr 2020 00:16:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.05_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/SRX7971800/SRX7971800.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:16:57: 24000000 INFO @ Thu, 16 Apr 2020 00:16:59: 18000000 INFO @ Thu, 16 Apr 2020 00:17:04: 25000000 INFO @ Thu, 16 Apr 2020 00:17:07: 19000000 INFO @ Thu, 16 Apr 2020 00:17:11: 26000000 INFO @ Thu, 16 Apr 2020 00:17:14: 20000000 INFO @ Thu, 16 Apr 2020 00:17:18: 27000000 INFO @ Thu, 16 Apr 2020 00:17:22: 21000000 INFO @ Thu, 16 Apr 2020 00:17:25: 28000000 INFO @ Thu, 16 Apr 2020 00:17:25: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:17:25: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:17:25: #1 total tags in treatment: 28077880 INFO @ Thu, 16 Apr 2020 00:17:25: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:17:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:17:26: #1 tags after filtering in treatment: 28077880 INFO @ Thu, 16 Apr 2020 00:17:26: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:17:26: #1 finished! INFO @ Thu, 16 Apr 2020 00:17:26: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:17:26: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:17:27: #2 number of paired peaks: 93 WARNING @ Thu, 16 Apr 2020 00:17:27: Too few paired peaks (93) 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 @ Thu, 16 Apr 2020 00:17:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.10_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/SRX7971800/SRX7971800.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:17:29: 22000000 INFO @ Thu, 16 Apr 2020 00:17:36: 23000000 INFO @ Thu, 16 Apr 2020 00:17:44: 24000000 INFO @ Thu, 16 Apr 2020 00:17:51: 25000000 INFO @ Thu, 16 Apr 2020 00:17:58: 26000000 INFO @ Thu, 16 Apr 2020 00:18:05: 27000000 INFO @ Thu, 16 Apr 2020 00:18:12: 28000000 INFO @ Thu, 16 Apr 2020 00:18:13: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:18:13: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:18:13: #1 total tags in treatment: 28077880 INFO @ Thu, 16 Apr 2020 00:18:13: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:18:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:18:13: #1 tags after filtering in treatment: 28077880 INFO @ Thu, 16 Apr 2020 00:18:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:18:13: #1 finished! INFO @ Thu, 16 Apr 2020 00:18:13: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:18:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:18:15: #2 number of paired peaks: 93 WARNING @ Thu, 16 Apr 2020 00:18:15: Too few paired peaks (93) 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 @ Thu, 16 Apr 2020 00:18:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.20_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/SRX7971800/SRX7971800.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971800/SRX7971800.20_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。