Job ID = 5720352 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T15:08:52 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 ) 2020-04-15T15:16:25 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 ) 2020-04-15T15:18:07 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 : 65,033,650 reads read : 65,033,650 reads written : 65,033,650 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: 00:22:19 65033650 reads; of these: 65033650 (100.00%) were unpaired; of these: 1650959 (2.54%) aligned 0 times 48058143 (73.90%) aligned exactly 1 time 15324548 (23.56%) aligned >1 times 97.46% overall alignment rate Time searching: 00:22:19 Overall time: 00:22:19 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 28 files... [bam_rmdupse_core] 20364221 / 63382691 = 0.3213 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 01:10:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.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 01:10:50: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:10:50: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:10:58: 1000000 INFO @ Thu, 16 Apr 2020 01:11:06: 2000000 INFO @ Thu, 16 Apr 2020 01:11:14: 3000000 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 01:11:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.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 01:11:20: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:11:20: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:11:22: 4000000 INFO @ Thu, 16 Apr 2020 01:11:28: 1000000 INFO @ Thu, 16 Apr 2020 01:11:30: 5000000 INFO @ Thu, 16 Apr 2020 01:11:36: 2000000 INFO @ Thu, 16 Apr 2020 01:11:39: 6000000 INFO @ Thu, 16 Apr 2020 01:11:44: 3000000 INFO @ Thu, 16 Apr 2020 01:11:47: 7000000 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 01:11:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.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 01:11:50: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:11:50: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:11:51: 4000000 INFO @ Thu, 16 Apr 2020 01:11:56: 8000000 INFO @ Thu, 16 Apr 2020 01:11:59: 1000000 INFO @ Thu, 16 Apr 2020 01:11:59: 5000000 INFO @ Thu, 16 Apr 2020 01:12:05: 9000000 INFO @ Thu, 16 Apr 2020 01:12:07: 6000000 INFO @ Thu, 16 Apr 2020 01:12:08: 2000000 INFO @ Thu, 16 Apr 2020 01:12:13: 10000000 INFO @ Thu, 16 Apr 2020 01:12:15: 7000000 INFO @ Thu, 16 Apr 2020 01:12:17: 3000000 INFO @ Thu, 16 Apr 2020 01:12:22: 11000000 INFO @ Thu, 16 Apr 2020 01:12:23: 8000000 INFO @ Thu, 16 Apr 2020 01:12:25: 4000000 INFO @ Thu, 16 Apr 2020 01:12:30: 12000000 INFO @ Thu, 16 Apr 2020 01:12:31: 9000000 INFO @ Thu, 16 Apr 2020 01:12:34: 5000000 INFO @ Thu, 16 Apr 2020 01:12:39: 13000000 INFO @ Thu, 16 Apr 2020 01:12:39: 10000000 INFO @ Thu, 16 Apr 2020 01:12:43: 6000000 INFO @ Thu, 16 Apr 2020 01:12:47: 11000000 INFO @ Thu, 16 Apr 2020 01:12:47: 14000000 INFO @ Thu, 16 Apr 2020 01:12:52: 7000000 INFO @ Thu, 16 Apr 2020 01:12:55: 12000000 INFO @ Thu, 16 Apr 2020 01:12:56: 15000000 INFO @ Thu, 16 Apr 2020 01:13:00: 8000000 INFO @ Thu, 16 Apr 2020 01:13:03: 13000000 INFO @ Thu, 16 Apr 2020 01:13:04: 16000000 INFO @ Thu, 16 Apr 2020 01:13:09: 9000000 INFO @ Thu, 16 Apr 2020 01:13:11: 14000000 INFO @ Thu, 16 Apr 2020 01:13:13: 17000000 INFO @ Thu, 16 Apr 2020 01:13:18: 10000000 INFO @ Thu, 16 Apr 2020 01:13:18: 15000000 INFO @ Thu, 16 Apr 2020 01:13:21: 18000000 INFO @ Thu, 16 Apr 2020 01:13:26: 16000000 INFO @ Thu, 16 Apr 2020 01:13:26: 11000000 INFO @ Thu, 16 Apr 2020 01:13:30: 19000000 INFO @ Thu, 16 Apr 2020 01:13:34: 17000000 INFO @ Thu, 16 Apr 2020 01:13:35: 12000000 INFO @ Thu, 16 Apr 2020 01:13:38: 20000000 INFO @ Thu, 16 Apr 2020 01:13:41: 18000000 INFO @ Thu, 16 Apr 2020 01:13:43: 13000000 INFO @ Thu, 16 Apr 2020 01:13:46: 21000000 INFO @ Thu, 16 Apr 2020 01:13:49: 19000000 INFO @ Thu, 16 Apr 2020 01:13:52: 14000000 INFO @ Thu, 16 Apr 2020 01:13:55: 22000000 INFO @ Thu, 16 Apr 2020 01:13:57: 20000000 INFO @ Thu, 16 Apr 2020 01:14:01: 15000000 INFO @ Thu, 16 Apr 2020 01:14:03: 23000000 INFO @ Thu, 16 Apr 2020 01:14:04: 21000000 INFO @ Thu, 16 Apr 2020 01:14:09: 16000000 INFO @ Thu, 16 Apr 2020 01:14:12: 24000000 INFO @ Thu, 16 Apr 2020 01:14:12: 22000000 INFO @ Thu, 16 Apr 2020 01:14:17: 17000000 INFO @ Thu, 16 Apr 2020 01:14:20: 23000000 INFO @ Thu, 16 Apr 2020 01:14:20: 25000000 INFO @ Thu, 16 Apr 2020 01:14:26: 18000000 INFO @ Thu, 16 Apr 2020 01:14:28: 24000000 INFO @ Thu, 16 Apr 2020 01:14:29: 26000000 INFO @ Thu, 16 Apr 2020 01:14:34: 19000000 INFO @ Thu, 16 Apr 2020 01:14:35: 25000000 INFO @ Thu, 16 Apr 2020 01:14:37: 27000000 INFO @ Thu, 16 Apr 2020 01:14:43: 20000000 INFO @ Thu, 16 Apr 2020 01:14:43: 26000000 INFO @ Thu, 16 Apr 2020 01:14:46: 28000000 INFO @ Thu, 16 Apr 2020 01:14:51: 27000000 INFO @ Thu, 16 Apr 2020 01:14:51: 21000000 INFO @ Thu, 16 Apr 2020 01:14:55: 29000000 INFO @ Thu, 16 Apr 2020 01:14:59: 28000000 INFO @ Thu, 16 Apr 2020 01:15:00: 22000000 INFO @ Thu, 16 Apr 2020 01:15:03: 30000000 INFO @ Thu, 16 Apr 2020 01:15:07: 29000000 INFO @ Thu, 16 Apr 2020 01:15:08: 23000000 INFO @ Thu, 16 Apr 2020 01:15:12: 31000000 INFO @ Thu, 16 Apr 2020 01:15:14: 30000000 INFO @ Thu, 16 Apr 2020 01:15:16: 24000000 INFO @ Thu, 16 Apr 2020 01:15:20: 32000000 INFO @ Thu, 16 Apr 2020 01:15:22: 31000000 INFO @ Thu, 16 Apr 2020 01:15:25: 25000000 INFO @ Thu, 16 Apr 2020 01:15:29: 33000000 INFO @ Thu, 16 Apr 2020 01:15:30: 32000000 INFO @ Thu, 16 Apr 2020 01:15:33: 26000000 INFO @ Thu, 16 Apr 2020 01:15:37: 34000000 INFO @ Thu, 16 Apr 2020 01:15:38: 33000000 INFO @ Thu, 16 Apr 2020 01:15:42: 27000000 INFO @ Thu, 16 Apr 2020 01:15:46: 34000000 INFO @ Thu, 16 Apr 2020 01:15:46: 35000000 INFO @ Thu, 16 Apr 2020 01:15:51: 28000000 INFO @ Thu, 16 Apr 2020 01:15:53: 35000000 INFO @ Thu, 16 Apr 2020 01:15:55: 36000000 INFO @ Thu, 16 Apr 2020 01:15:59: 29000000 INFO @ Thu, 16 Apr 2020 01:16:01: 36000000 INFO @ Thu, 16 Apr 2020 01:16:03: 37000000 INFO @ Thu, 16 Apr 2020 01:16:08: 30000000 INFO @ Thu, 16 Apr 2020 01:16:09: 37000000 INFO @ Thu, 16 Apr 2020 01:16:12: 38000000 INFO @ Thu, 16 Apr 2020 01:16:17: 31000000 INFO @ Thu, 16 Apr 2020 01:16:17: 38000000 INFO @ Thu, 16 Apr 2020 01:16:20: 39000000 INFO @ Thu, 16 Apr 2020 01:16:25: 39000000 INFO @ Thu, 16 Apr 2020 01:16:25: 32000000 INFO @ Thu, 16 Apr 2020 01:16:29: 40000000 INFO @ Thu, 16 Apr 2020 01:16:33: 40000000 INFO @ Thu, 16 Apr 2020 01:16:34: 33000000 INFO @ Thu, 16 Apr 2020 01:16:37: 41000000 INFO @ Thu, 16 Apr 2020 01:16:41: 41000000 INFO @ Thu, 16 Apr 2020 01:16:42: 34000000 INFO @ Thu, 16 Apr 2020 01:16:46: 42000000 INFO @ Thu, 16 Apr 2020 01:16:49: 42000000 INFO @ Thu, 16 Apr 2020 01:16:51: 35000000 INFO @ Thu, 16 Apr 2020 01:16:54: 43000000 INFO @ Thu, 16 Apr 2020 01:16:55: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 01:16:55: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 01:16:55: #1 total tags in treatment: 43018470 INFO @ Thu, 16 Apr 2020 01:16:55: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:16:55: #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 01:16:55: #1 tags after filtering in treatment: 43018470 INFO @ Thu, 16 Apr 2020 01:16:55: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:16:55: #1 finished! INFO @ Thu, 16 Apr 2020 01:16:55: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:16:55: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:16:56: 43000000 INFO @ Thu, 16 Apr 2020 01:16:57: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 01:16:57: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 01:16:57: #1 total tags in treatment: 43018470 INFO @ Thu, 16 Apr 2020 01:16:57: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:16:57: #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 01:16:58: #1 tags after filtering in treatment: 43018470 INFO @ Thu, 16 Apr 2020 01:16:58: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:16:58: #1 finished! INFO @ Thu, 16 Apr 2020 01:16:58: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:16:58: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:16:58: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 01:16:58: 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 @ Thu, 16 Apr 2020 01:16:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.05_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/SRX7971811/SRX7971811.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:16:59: 36000000 INFO @ Thu, 16 Apr 2020 01:17:00: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 01:17:00: 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 @ Thu, 16 Apr 2020 01:17:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.10_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/SRX7971811/SRX7971811.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:17:07: 37000000 INFO @ Thu, 16 Apr 2020 01:17:15: 38000000 INFO @ Thu, 16 Apr 2020 01:17:23: 39000000 INFO @ Thu, 16 Apr 2020 01:17:31: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 16 Apr 2020 01:17:39: 41000000 INFO @ Thu, 16 Apr 2020 01:17:46: 42000000 INFO @ Thu, 16 Apr 2020 01:17:54: 43000000 INFO @ Thu, 16 Apr 2020 01:17:54: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 01:17:54: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 01:17:54: #1 total tags in treatment: 43018470 INFO @ Thu, 16 Apr 2020 01:17:54: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:17:54: #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 01:17:55: #1 tags after filtering in treatment: 43018470 INFO @ Thu, 16 Apr 2020 01:17:55: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:17:55: #1 finished! INFO @ Thu, 16 Apr 2020 01:17:55: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:17:55: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:17:57: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 01:17:57: 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 @ Thu, 16 Apr 2020 01:17:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.20_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/SRX7971811/SRX7971811.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971811/SRX7971811.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。