Job ID = 5720344 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T14:53:05 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 ) 2020-04-15T14:53:05 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 ) 2020-04-15T14:53:05 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 : 41,470,633 reads read : 41,470,633 reads written : 41,470,633 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: 00:13:04 41470633 reads; of these: 41470633 (100.00%) were unpaired; of these: 363878 (0.88%) aligned 0 times 34390893 (82.93%) aligned exactly 1 time 6715862 (16.19%) aligned >1 times 99.12% overall alignment rate Time searching: 00:13:04 Overall time: 00:13:04 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 20 files... [bam_rmdupse_core] 6200888 / 41106755 = 0.1508 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 00:38:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.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 00:38:26: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:38:26: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:38:32: 1000000 INFO @ Thu, 16 Apr 2020 00:38:37: 2000000 INFO @ Thu, 16 Apr 2020 00:38:42: 3000000 INFO @ Thu, 16 Apr 2020 00:38:48: 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 00:38:53: 5000000 INFO @ Thu, 16 Apr 2020 00:38:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.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 00:38:57: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:38:57: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:38:59: 6000000 INFO @ Thu, 16 Apr 2020 00:39:03: 1000000 INFO @ Thu, 16 Apr 2020 00:39:04: 7000000 INFO @ Thu, 16 Apr 2020 00:39:08: 2000000 INFO @ Thu, 16 Apr 2020 00:39:10: 8000000 INFO @ Thu, 16 Apr 2020 00:39:14: 3000000 INFO @ Thu, 16 Apr 2020 00:39:15: 9000000 INFO @ Thu, 16 Apr 2020 00:39:20: 4000000 INFO @ Thu, 16 Apr 2020 00:39:21: 10000000 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 00:39:25: 5000000 INFO @ Thu, 16 Apr 2020 00:39:26: 11000000 INFO @ Thu, 16 Apr 2020 00:39:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.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 00:39:27: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:39:27: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:39:31: 6000000 INFO @ Thu, 16 Apr 2020 00:39:32: 12000000 INFO @ Thu, 16 Apr 2020 00:39:34: 1000000 INFO @ Thu, 16 Apr 2020 00:39:37: 7000000 INFO @ Thu, 16 Apr 2020 00:39:38: 13000000 INFO @ Thu, 16 Apr 2020 00:39:40: 2000000 INFO @ Thu, 16 Apr 2020 00:39:42: 8000000 INFO @ Thu, 16 Apr 2020 00:39:44: 14000000 INFO @ Thu, 16 Apr 2020 00:39:47: 3000000 INFO @ Thu, 16 Apr 2020 00:39:48: 9000000 INFO @ Thu, 16 Apr 2020 00:39:50: 15000000 INFO @ Thu, 16 Apr 2020 00:39:53: 4000000 INFO @ Thu, 16 Apr 2020 00:39:54: 10000000 INFO @ Thu, 16 Apr 2020 00:39:55: 16000000 INFO @ Thu, 16 Apr 2020 00:39:59: 11000000 INFO @ Thu, 16 Apr 2020 00:40:00: 5000000 INFO @ Thu, 16 Apr 2020 00:40:01: 17000000 INFO @ Thu, 16 Apr 2020 00:40:06: 12000000 INFO @ Thu, 16 Apr 2020 00:40:07: 6000000 INFO @ Thu, 16 Apr 2020 00:40:09: 18000000 INFO @ Thu, 16 Apr 2020 00:40:13: 7000000 INFO @ Thu, 16 Apr 2020 00:40:14: 13000000 INFO @ Thu, 16 Apr 2020 00:40:18: 19000000 INFO @ Thu, 16 Apr 2020 00:40:21: 14000000 INFO @ Thu, 16 Apr 2020 00:40:21: 8000000 INFO @ Thu, 16 Apr 2020 00:40:25: 20000000 INFO @ Thu, 16 Apr 2020 00:40:28: 15000000 INFO @ Thu, 16 Apr 2020 00:40:29: 9000000 INFO @ Thu, 16 Apr 2020 00:40:32: 21000000 INFO @ Thu, 16 Apr 2020 00:40:35: 16000000 INFO @ Thu, 16 Apr 2020 00:40:37: 10000000 INFO @ Thu, 16 Apr 2020 00:40:39: 22000000 INFO @ Thu, 16 Apr 2020 00:40:43: 17000000 INFO @ Thu, 16 Apr 2020 00:40:47: 23000000 INFO @ Thu, 16 Apr 2020 00:40:47: 11000000 INFO @ Thu, 16 Apr 2020 00:40:50: 18000000 INFO @ Thu, 16 Apr 2020 00:40:54: 24000000 INFO @ Thu, 16 Apr 2020 00:40:54: 12000000 INFO @ Thu, 16 Apr 2020 00:40:56: 19000000 INFO @ Thu, 16 Apr 2020 00:41:00: 25000000 INFO @ Thu, 16 Apr 2020 00:41:02: 13000000 INFO @ Thu, 16 Apr 2020 00:41:05: 20000000 INFO @ Thu, 16 Apr 2020 00:41:08: 26000000 INFO @ Thu, 16 Apr 2020 00:41:10: 14000000 INFO @ Thu, 16 Apr 2020 00:41:12: 21000000 INFO @ Thu, 16 Apr 2020 00:41:15: 27000000 INFO @ Thu, 16 Apr 2020 00:41:19: 22000000 INFO @ Thu, 16 Apr 2020 00:41:19: 15000000 INFO @ Thu, 16 Apr 2020 00:41:22: 28000000 INFO @ Thu, 16 Apr 2020 00:41:26: 23000000 INFO @ Thu, 16 Apr 2020 00:41:26: 16000000 INFO @ Thu, 16 Apr 2020 00:41:30: 29000000 INFO @ Thu, 16 Apr 2020 00:41:32: 24000000 INFO @ Thu, 16 Apr 2020 00:41:35: 17000000 INFO @ Thu, 16 Apr 2020 00:41:37: 30000000 INFO @ Thu, 16 Apr 2020 00:41:39: 25000000 INFO @ Thu, 16 Apr 2020 00:41:43: 18000000 INFO @ Thu, 16 Apr 2020 00:41:45: 31000000 INFO @ Thu, 16 Apr 2020 00:41:45: 26000000 INFO @ Thu, 16 Apr 2020 00:41:52: 27000000 INFO @ Thu, 16 Apr 2020 00:41:52: 19000000 INFO @ Thu, 16 Apr 2020 00:41:52: 32000000 INFO @ Thu, 16 Apr 2020 00:41:59: 28000000 INFO @ Thu, 16 Apr 2020 00:42:00: 20000000 INFO @ Thu, 16 Apr 2020 00:42:01: 33000000 INFO @ Thu, 16 Apr 2020 00:42:05: 29000000 INFO @ Thu, 16 Apr 2020 00:42:07: 21000000 INFO @ Thu, 16 Apr 2020 00:42:08: 34000000 INFO @ Thu, 16 Apr 2020 00:42:12: 30000000 INFO @ Thu, 16 Apr 2020 00:42:15: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:42:15: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:42:15: #1 total tags in treatment: 34905867 INFO @ Thu, 16 Apr 2020 00:42:15: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:42:15: #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 00:42:15: 22000000 INFO @ Thu, 16 Apr 2020 00:42:16: #1 tags after filtering in treatment: 34905867 INFO @ Thu, 16 Apr 2020 00:42:16: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:42:16: #1 finished! INFO @ Thu, 16 Apr 2020 00:42:16: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:42:16: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:42:18: #2 number of paired peaks: 25 WARNING @ Thu, 16 Apr 2020 00:42:18: Too few paired peaks (25) 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 00:42:18: Process for pairing-model is terminated! INFO @ Thu, 16 Apr 2020 00:42:19: 31000000 cut: /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.05_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/SRX7971806/SRX7971806.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:42:23: 23000000 INFO @ Thu, 16 Apr 2020 00:42:27: 32000000 INFO @ Thu, 16 Apr 2020 00:42:31: 24000000 INFO @ Thu, 16 Apr 2020 00:42:33: 33000000 INFO @ Thu, 16 Apr 2020 00:42:40: 25000000 INFO @ Thu, 16 Apr 2020 00:42:40: 34000000 INFO @ Thu, 16 Apr 2020 00:42:46: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:42:46: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:42:46: #1 total tags in treatment: 34905867 INFO @ Thu, 16 Apr 2020 00:42:46: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:42:46: #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 00:42:47: #1 tags after filtering in treatment: 34905867 INFO @ Thu, 16 Apr 2020 00:42:47: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:42:47: #1 finished! INFO @ Thu, 16 Apr 2020 00:42:47: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:42:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:42:48: 26000000 INFO @ Thu, 16 Apr 2020 00:42:49: #2 number of paired peaks: 25 WARNING @ Thu, 16 Apr 2020 00:42:49: Too few paired peaks (25) 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 00:42:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:42:55: 27000000 INFO @ Thu, 16 Apr 2020 00:43:02: 28000000 INFO @ Thu, 16 Apr 2020 00:43:09: 29000000 INFO @ Thu, 16 Apr 2020 00:43:18: 30000000 INFO @ Thu, 16 Apr 2020 00:43:25: 31000000 INFO @ Thu, 16 Apr 2020 00:43:32: 32000000 INFO @ Thu, 16 Apr 2020 00:43:40: 33000000 INFO @ Thu, 16 Apr 2020 00:43:47: 34000000 INFO @ Thu, 16 Apr 2020 00:43:54: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:43:54: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:43:54: #1 total tags in treatment: 34905867 INFO @ Thu, 16 Apr 2020 00:43:54: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:43:54: #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 00:43:55: #1 tags after filtering in treatment: 34905867 INFO @ Thu, 16 Apr 2020 00:43:55: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:43:55: #1 finished! INFO @ Thu, 16 Apr 2020 00:43:55: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:43:55: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:43:58: #2 number of paired peaks: 25 WARNING @ Thu, 16 Apr 2020 00:43:58: Too few paired peaks (25) 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 00:43:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.20_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/SRX7971806/SRX7971806.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971806/SRX7971806.20_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。