Job ID = 5720355 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T15:28:37 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 ) 2020-04-15T15:33:14 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 : 76,735,594 reads read : 76,735,594 reads written : 76,735,594 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:23:52 76735594 reads; of these: 76735594 (100.00%) were unpaired; of these: 525473 (0.68%) aligned 0 times 63509026 (82.76%) aligned exactly 1 time 12701095 (16.55%) aligned >1 times 99.32% overall alignment rate Time searching: 00:23:53 Overall time: 00:23:53 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 32 files... [bam_rmdupse_core] 18670467 / 76210121 = 0.2450 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 01:26:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.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 01:26:56: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:26:56: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:27:03: 1000000 INFO @ Thu, 16 Apr 2020 01:27:09: 2000000 INFO @ Thu, 16 Apr 2020 01:27:15: 3000000 INFO @ Thu, 16 Apr 2020 01:27:22: 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 01:27:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.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 01:27:26: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:27:26: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:27:28: 5000000 INFO @ Thu, 16 Apr 2020 01:27:33: 1000000 INFO @ Thu, 16 Apr 2020 01:27:35: 6000000 INFO @ Thu, 16 Apr 2020 01:27:40: 2000000 INFO @ Thu, 16 Apr 2020 01:27:42: 7000000 INFO @ Thu, 16 Apr 2020 01:27:47: 3000000 INFO @ Thu, 16 Apr 2020 01:27:49: 8000000 INFO @ Thu, 16 Apr 2020 01:27:54: 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 01:27:56: 9000000 INFO @ Thu, 16 Apr 2020 01:27:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.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 01:27:56: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:27:56: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:28:01: 5000000 INFO @ Thu, 16 Apr 2020 01:28:03: 1000000 INFO @ Thu, 16 Apr 2020 01:28:03: 10000000 INFO @ Thu, 16 Apr 2020 01:28:08: 6000000 INFO @ Thu, 16 Apr 2020 01:28:09: 2000000 INFO @ Thu, 16 Apr 2020 01:28:10: 11000000 INFO @ Thu, 16 Apr 2020 01:28:14: 3000000 INFO @ Thu, 16 Apr 2020 01:28:15: 7000000 INFO @ Thu, 16 Apr 2020 01:28:17: 12000000 INFO @ Thu, 16 Apr 2020 01:28:20: 4000000 INFO @ Thu, 16 Apr 2020 01:28:22: 8000000 INFO @ Thu, 16 Apr 2020 01:28:23: 13000000 INFO @ Thu, 16 Apr 2020 01:28:26: 5000000 INFO @ Thu, 16 Apr 2020 01:28:30: 9000000 INFO @ Thu, 16 Apr 2020 01:28:30: 14000000 INFO @ Thu, 16 Apr 2020 01:28:32: 6000000 INFO @ Thu, 16 Apr 2020 01:28:37: 15000000 INFO @ Thu, 16 Apr 2020 01:28:37: 10000000 INFO @ Thu, 16 Apr 2020 01:28:38: 7000000 INFO @ Thu, 16 Apr 2020 01:28:44: 16000000 INFO @ Thu, 16 Apr 2020 01:28:44: 11000000 INFO @ Thu, 16 Apr 2020 01:28:44: 8000000 INFO @ Thu, 16 Apr 2020 01:28:50: 9000000 INFO @ Thu, 16 Apr 2020 01:28:51: 17000000 INFO @ Thu, 16 Apr 2020 01:28:51: 12000000 INFO @ Thu, 16 Apr 2020 01:28:56: 10000000 INFO @ Thu, 16 Apr 2020 01:28:58: 13000000 INFO @ Thu, 16 Apr 2020 01:28:58: 18000000 INFO @ Thu, 16 Apr 2020 01:29:02: 11000000 INFO @ Thu, 16 Apr 2020 01:29:05: 19000000 INFO @ Thu, 16 Apr 2020 01:29:05: 14000000 INFO @ Thu, 16 Apr 2020 01:29:08: 12000000 INFO @ Thu, 16 Apr 2020 01:29:12: 20000000 INFO @ Thu, 16 Apr 2020 01:29:12: 15000000 INFO @ Thu, 16 Apr 2020 01:29:14: 13000000 INFO @ Thu, 16 Apr 2020 01:29:18: 21000000 INFO @ Thu, 16 Apr 2020 01:29:19: 16000000 INFO @ Thu, 16 Apr 2020 01:29:20: 14000000 INFO @ Thu, 16 Apr 2020 01:29:25: 22000000 INFO @ Thu, 16 Apr 2020 01:29:26: 15000000 INFO @ Thu, 16 Apr 2020 01:29:26: 17000000 INFO @ Thu, 16 Apr 2020 01:29:31: 16000000 INFO @ Thu, 16 Apr 2020 01:29:32: 23000000 INFO @ Thu, 16 Apr 2020 01:29:33: 18000000 INFO @ Thu, 16 Apr 2020 01:29:37: 17000000 INFO @ Thu, 16 Apr 2020 01:29:39: 24000000 INFO @ Thu, 16 Apr 2020 01:29:40: 19000000 INFO @ Thu, 16 Apr 2020 01:29:43: 18000000 INFO @ Thu, 16 Apr 2020 01:29:45: 25000000 INFO @ Thu, 16 Apr 2020 01:29:47: 20000000 INFO @ Thu, 16 Apr 2020 01:29:49: 19000000 INFO @ Thu, 16 Apr 2020 01:29:52: 26000000 INFO @ Thu, 16 Apr 2020 01:29:53: 21000000 INFO @ Thu, 16 Apr 2020 01:29:55: 20000000 INFO @ Thu, 16 Apr 2020 01:29:59: 27000000 INFO @ Thu, 16 Apr 2020 01:30:00: 22000000 INFO @ Thu, 16 Apr 2020 01:30:01: 21000000 INFO @ Thu, 16 Apr 2020 01:30:05: 28000000 INFO @ Thu, 16 Apr 2020 01:30:07: 22000000 INFO @ Thu, 16 Apr 2020 01:30:07: 23000000 INFO @ Thu, 16 Apr 2020 01:30:12: 29000000 INFO @ Thu, 16 Apr 2020 01:30:13: 23000000 INFO @ Thu, 16 Apr 2020 01:30:14: 24000000 INFO @ Thu, 16 Apr 2020 01:30:19: 30000000 INFO @ Thu, 16 Apr 2020 01:30:19: 24000000 INFO @ Thu, 16 Apr 2020 01:30:20: 25000000 INFO @ Thu, 16 Apr 2020 01:30:25: 25000000 INFO @ Thu, 16 Apr 2020 01:30:25: 31000000 INFO @ Thu, 16 Apr 2020 01:30:27: 26000000 INFO @ Thu, 16 Apr 2020 01:30:31: 26000000 INFO @ Thu, 16 Apr 2020 01:30:32: 32000000 INFO @ Thu, 16 Apr 2020 01:30:34: 27000000 INFO @ Thu, 16 Apr 2020 01:30:36: 27000000 INFO @ Thu, 16 Apr 2020 01:30:39: 33000000 INFO @ Thu, 16 Apr 2020 01:30:40: 28000000 INFO @ Thu, 16 Apr 2020 01:30:42: 28000000 INFO @ Thu, 16 Apr 2020 01:30:46: 34000000 INFO @ Thu, 16 Apr 2020 01:30:47: 29000000 INFO @ Thu, 16 Apr 2020 01:30:48: 29000000 INFO @ Thu, 16 Apr 2020 01:30:52: 35000000 INFO @ Thu, 16 Apr 2020 01:30:53: 30000000 INFO @ Thu, 16 Apr 2020 01:30:54: 30000000 INFO @ Thu, 16 Apr 2020 01:30:59: 36000000 INFO @ Thu, 16 Apr 2020 01:31:00: 31000000 INFO @ Thu, 16 Apr 2020 01:31:01: 31000000 INFO @ Thu, 16 Apr 2020 01:31:06: 37000000 INFO @ Thu, 16 Apr 2020 01:31:07: 32000000 INFO @ Thu, 16 Apr 2020 01:31:08: 32000000 INFO @ Thu, 16 Apr 2020 01:31:12: 38000000 INFO @ Thu, 16 Apr 2020 01:31:14: 33000000 INFO @ Thu, 16 Apr 2020 01:31:15: 33000000 INFO @ Thu, 16 Apr 2020 01:31:19: 39000000 INFO @ Thu, 16 Apr 2020 01:31:21: 34000000 INFO @ Thu, 16 Apr 2020 01:31:21: 34000000 INFO @ Thu, 16 Apr 2020 01:31:26: 40000000 INFO @ Thu, 16 Apr 2020 01:31:27: 35000000 INFO @ Thu, 16 Apr 2020 01:31:28: 35000000 INFO @ Thu, 16 Apr 2020 01:31:33: 41000000 INFO @ Thu, 16 Apr 2020 01:31:34: 36000000 INFO @ Thu, 16 Apr 2020 01:31:35: 36000000 INFO @ Thu, 16 Apr 2020 01:31:39: 42000000 INFO @ Thu, 16 Apr 2020 01:31:40: 37000000 INFO @ Thu, 16 Apr 2020 01:31:41: 37000000 INFO @ Thu, 16 Apr 2020 01:31:46: 43000000 INFO @ Thu, 16 Apr 2020 01:31:47: 38000000 INFO @ Thu, 16 Apr 2020 01:31:48: 38000000 INFO @ Thu, 16 Apr 2020 01:31:52: 44000000 INFO @ Thu, 16 Apr 2020 01:31:54: 39000000 INFO @ Thu, 16 Apr 2020 01:31:54: 39000000 INFO @ Thu, 16 Apr 2020 01:31:59: 45000000 INFO @ Thu, 16 Apr 2020 01:32:01: 40000000 INFO @ Thu, 16 Apr 2020 01:32:01: 40000000 INFO @ Thu, 16 Apr 2020 01:32:05: 46000000 INFO @ Thu, 16 Apr 2020 01:32:08: 41000000 INFO @ Thu, 16 Apr 2020 01:32:08: 41000000 INFO @ Thu, 16 Apr 2020 01:32:12: 47000000 INFO @ Thu, 16 Apr 2020 01:32:14: 42000000 INFO @ Thu, 16 Apr 2020 01:32:15: 42000000 INFO @ Thu, 16 Apr 2020 01:32:19: 48000000 INFO @ Thu, 16 Apr 2020 01:32:21: 43000000 INFO @ Thu, 16 Apr 2020 01:32:21: 43000000 INFO @ Thu, 16 Apr 2020 01:32:25: 49000000 INFO @ Thu, 16 Apr 2020 01:32:27: 44000000 INFO @ Thu, 16 Apr 2020 01:32:28: 44000000 INFO @ Thu, 16 Apr 2020 01:32:32: 50000000 INFO @ Thu, 16 Apr 2020 01:32:34: 45000000 INFO @ Thu, 16 Apr 2020 01:32:35: 45000000 INFO @ Thu, 16 Apr 2020 01:32:38: 51000000 INFO @ Thu, 16 Apr 2020 01:32:41: 46000000 INFO @ Thu, 16 Apr 2020 01:32:41: 46000000 INFO @ Thu, 16 Apr 2020 01:32:45: 52000000 INFO @ Thu, 16 Apr 2020 01:32:47: 47000000 INFO @ Thu, 16 Apr 2020 01:32:48: 47000000 INFO @ Thu, 16 Apr 2020 01:32:52: 53000000 INFO @ Thu, 16 Apr 2020 01:32:54: 48000000 INFO @ Thu, 16 Apr 2020 01:32:55: 48000000 INFO @ Thu, 16 Apr 2020 01:32:58: 54000000 INFO @ Thu, 16 Apr 2020 01:33:01: 49000000 INFO @ Thu, 16 Apr 2020 01:33:01: 49000000 INFO @ Thu, 16 Apr 2020 01:33:05: 55000000 INFO @ Thu, 16 Apr 2020 01:33:07: 50000000 INFO @ Thu, 16 Apr 2020 01:33:08: 50000000 INFO @ Thu, 16 Apr 2020 01:33:12: 56000000 INFO @ Thu, 16 Apr 2020 01:33:14: 51000000 INFO @ Thu, 16 Apr 2020 01:33:15: 51000000 INFO @ Thu, 16 Apr 2020 01:33:18: 57000000 INFO @ Thu, 16 Apr 2020 01:33:20: 52000000 INFO @ Thu, 16 Apr 2020 01:33:21: 52000000 INFO @ Thu, 16 Apr 2020 01:33:22: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 01:33:22: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 01:33:22: #1 total tags in treatment: 57539654 INFO @ Thu, 16 Apr 2020 01:33:22: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:33:22: #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 01:33:23: #1 tags after filtering in treatment: 57539654 INFO @ Thu, 16 Apr 2020 01:33:23: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:33:23: #1 finished! INFO @ Thu, 16 Apr 2020 01:33:23: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:33:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:33:27: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 01:33:27: 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 01:33:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.05_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/SRX7971813/SRX7971813.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:33:27: 53000000 INFO @ Thu, 16 Apr 2020 01:33:28: 53000000 INFO @ Thu, 16 Apr 2020 01:33:34: 54000000 INFO @ Thu, 16 Apr 2020 01:33:34: 54000000 INFO @ Thu, 16 Apr 2020 01:33:40: 55000000 INFO @ Thu, 16 Apr 2020 01:33:41: 55000000 INFO @ Thu, 16 Apr 2020 01:33:47: 56000000 INFO @ Thu, 16 Apr 2020 01:33:47: 56000000 INFO @ Thu, 16 Apr 2020 01:33:53: 57000000 INFO @ Thu, 16 Apr 2020 01:33:54: 57000000 INFO @ Thu, 16 Apr 2020 01:33:57: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 01:33:57: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 01:33:57: #1 total tags in treatment: 57539654 INFO @ Thu, 16 Apr 2020 01:33:57: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:33:57: #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 01:33:58: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 01:33:58: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 01:33:58: #1 total tags in treatment: 57539654 INFO @ Thu, 16 Apr 2020 01:33:58: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:33:58: #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 01:33:58: #1 tags after filtering in treatment: 57539654 INFO @ Thu, 16 Apr 2020 01:33:58: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:33:58: #1 finished! INFO @ Thu, 16 Apr 2020 01:33:58: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:33:58: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:33:59: #1 tags after filtering in treatment: 57539654 INFO @ Thu, 16 Apr 2020 01:33:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:33:59: #1 finished! INFO @ Thu, 16 Apr 2020 01:33:59: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:33:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:34:02: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 01:34:02: 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 01:34:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.10_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/SRX7971813/SRX7971813.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:34:02: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 01:34:02: 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 01:34:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.20_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/SRX7971813/SRX7971813.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971813/SRX7971813.20_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。