Job ID = 5720834 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T16:49:30 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 ) 2020-04-15T16:49:30 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 ) 2020-04-15T16:49:30 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 : 49,791,609 reads read : 49,791,609 reads written : 49,791,609 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: 00:16:26 49791609 reads; of these: 49791609 (100.00%) were unpaired; of these: 1607143 (3.23%) aligned 0 times 37733225 (75.78%) aligned exactly 1 time 10451241 (20.99%) aligned >1 times 96.77% overall alignment rate Time searching: 00:16:26 Overall time: 00:16:26 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 6943078 / 48184466 = 0.1441 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 02:39:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.bam'] # control file = None # effective genome size = 1.20e+08 # 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 02:39:59: #1 read tag files... INFO @ Thu, 16 Apr 2020 02:39:59: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 02:40:04: 1000000 INFO @ Thu, 16 Apr 2020 02:40:10: 2000000 INFO @ Thu, 16 Apr 2020 02:40:16: 3000000 INFO @ Thu, 16 Apr 2020 02:40:22: 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 02:40:28: 5000000 INFO @ Thu, 16 Apr 2020 02:40:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.bam'] # control file = None # effective genome size = 1.20e+08 # 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 02:40:29: #1 read tag files... INFO @ Thu, 16 Apr 2020 02:40:29: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 02:40:35: 6000000 INFO @ Thu, 16 Apr 2020 02:40:37: 1000000 INFO @ Thu, 16 Apr 2020 02:40:42: 7000000 INFO @ Thu, 16 Apr 2020 02:40:45: 2000000 INFO @ Thu, 16 Apr 2020 02:40:49: 8000000 INFO @ Thu, 16 Apr 2020 02:40:53: 3000000 INFO @ Thu, 16 Apr 2020 02:40:56: 9000000 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 02:40:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.bam'] # control file = None # effective genome size = 1.20e+08 # 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 02:40:59: #1 read tag files... INFO @ Thu, 16 Apr 2020 02:40:59: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 02:41:01: 4000000 INFO @ Thu, 16 Apr 2020 02:41:04: 10000000 INFO @ Thu, 16 Apr 2020 02:41:07: 1000000 INFO @ Thu, 16 Apr 2020 02:41:10: 5000000 INFO @ Thu, 16 Apr 2020 02:41:11: 11000000 INFO @ Thu, 16 Apr 2020 02:41:15: 2000000 INFO @ Thu, 16 Apr 2020 02:41:18: 6000000 INFO @ Thu, 16 Apr 2020 02:41:18: 12000000 INFO @ Thu, 16 Apr 2020 02:41:23: 3000000 INFO @ Thu, 16 Apr 2020 02:41:26: 13000000 INFO @ Thu, 16 Apr 2020 02:41:26: 7000000 INFO @ Thu, 16 Apr 2020 02:41:31: 4000000 INFO @ Thu, 16 Apr 2020 02:41:33: 14000000 INFO @ Thu, 16 Apr 2020 02:41:34: 8000000 INFO @ Thu, 16 Apr 2020 02:41:38: 5000000 INFO @ Thu, 16 Apr 2020 02:41:40: 15000000 INFO @ Thu, 16 Apr 2020 02:41:42: 9000000 INFO @ Thu, 16 Apr 2020 02:41:46: 6000000 INFO @ Thu, 16 Apr 2020 02:41:48: 16000000 INFO @ Thu, 16 Apr 2020 02:41:50: 10000000 INFO @ Thu, 16 Apr 2020 02:41:53: 7000000 INFO @ Thu, 16 Apr 2020 02:41:55: 17000000 INFO @ Thu, 16 Apr 2020 02:41:58: 11000000 INFO @ Thu, 16 Apr 2020 02:42:00: 8000000 INFO @ Thu, 16 Apr 2020 02:42:02: 18000000 INFO @ Thu, 16 Apr 2020 02:42:05: 12000000 INFO @ Thu, 16 Apr 2020 02:42:08: 9000000 INFO @ Thu, 16 Apr 2020 02:42:10: 19000000 INFO @ Thu, 16 Apr 2020 02:42:13: 13000000 INFO @ Thu, 16 Apr 2020 02:42:15: 10000000 INFO @ Thu, 16 Apr 2020 02:42:17: 20000000 INFO @ Thu, 16 Apr 2020 02:42:21: 14000000 INFO @ Thu, 16 Apr 2020 02:42:22: 11000000 INFO @ Thu, 16 Apr 2020 02:42:24: 21000000 INFO @ Thu, 16 Apr 2020 02:42:28: 15000000 INFO @ Thu, 16 Apr 2020 02:42:29: 12000000 INFO @ Thu, 16 Apr 2020 02:42:31: 22000000 INFO @ Thu, 16 Apr 2020 02:42:36: 13000000 INFO @ Thu, 16 Apr 2020 02:42:36: 16000000 INFO @ Thu, 16 Apr 2020 02:42:38: 23000000 INFO @ Thu, 16 Apr 2020 02:42:43: 14000000 INFO @ Thu, 16 Apr 2020 02:42:44: 17000000 INFO @ Thu, 16 Apr 2020 02:42:46: 24000000 INFO @ Thu, 16 Apr 2020 02:42:50: 15000000 INFO @ Thu, 16 Apr 2020 02:42:52: 18000000 INFO @ Thu, 16 Apr 2020 02:42:53: 25000000 INFO @ Thu, 16 Apr 2020 02:42:58: 16000000 INFO @ Thu, 16 Apr 2020 02:43:00: 19000000 INFO @ Thu, 16 Apr 2020 02:43:00: 26000000 INFO @ Thu, 16 Apr 2020 02:43:05: 17000000 INFO @ Thu, 16 Apr 2020 02:43:08: 27000000 INFO @ Thu, 16 Apr 2020 02:43:08: 20000000 INFO @ Thu, 16 Apr 2020 02:43:12: 18000000 INFO @ Thu, 16 Apr 2020 02:43:15: 28000000 INFO @ Thu, 16 Apr 2020 02:43:16: 21000000 INFO @ Thu, 16 Apr 2020 02:43:20: 19000000 INFO @ Thu, 16 Apr 2020 02:43:23: 29000000 INFO @ Thu, 16 Apr 2020 02:43:24: 22000000 INFO @ Thu, 16 Apr 2020 02:43:27: 20000000 INFO @ Thu, 16 Apr 2020 02:43:30: 30000000 INFO @ Thu, 16 Apr 2020 02:43:32: 23000000 INFO @ Thu, 16 Apr 2020 02:43:34: 21000000 INFO @ Thu, 16 Apr 2020 02:43:38: 31000000 INFO @ Thu, 16 Apr 2020 02:43:40: 24000000 INFO @ Thu, 16 Apr 2020 02:43:41: 22000000 INFO @ Thu, 16 Apr 2020 02:43:46: 32000000 INFO @ Thu, 16 Apr 2020 02:43:48: 25000000 INFO @ Thu, 16 Apr 2020 02:43:48: 23000000 INFO @ Thu, 16 Apr 2020 02:43:54: 33000000 INFO @ Thu, 16 Apr 2020 02:43:55: 24000000 INFO @ Thu, 16 Apr 2020 02:43:56: 26000000 INFO @ Thu, 16 Apr 2020 02:44:02: 34000000 INFO @ Thu, 16 Apr 2020 02:44:02: 25000000 INFO @ Thu, 16 Apr 2020 02:44:03: 27000000 INFO @ Thu, 16 Apr 2020 02:44:09: 26000000 INFO @ Thu, 16 Apr 2020 02:44:10: 35000000 INFO @ Thu, 16 Apr 2020 02:44:11: 28000000 INFO @ Thu, 16 Apr 2020 02:44:16: 27000000 INFO @ Thu, 16 Apr 2020 02:44:18: 36000000 INFO @ Thu, 16 Apr 2020 02:44:19: 29000000 INFO @ Thu, 16 Apr 2020 02:44:23: 28000000 INFO @ Thu, 16 Apr 2020 02:44:25: 37000000 INFO @ Thu, 16 Apr 2020 02:44:26: 30000000 INFO @ Thu, 16 Apr 2020 02:44:30: 29000000 INFO @ Thu, 16 Apr 2020 02:44:33: 38000000 INFO @ Thu, 16 Apr 2020 02:44:34: 31000000 INFO @ Thu, 16 Apr 2020 02:44:37: 30000000 INFO @ Thu, 16 Apr 2020 02:44:41: 39000000 INFO @ Thu, 16 Apr 2020 02:44:42: 32000000 INFO @ Thu, 16 Apr 2020 02:44:44: 31000000 INFO @ Thu, 16 Apr 2020 02:44:48: 33000000 INFO @ Thu, 16 Apr 2020 02:44:49: 40000000 INFO @ Thu, 16 Apr 2020 02:44:52: 32000000 INFO @ Thu, 16 Apr 2020 02:44:55: 34000000 INFO @ Thu, 16 Apr 2020 02:44:56: 41000000 INFO @ Thu, 16 Apr 2020 02:44:59: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 02:44:59: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 02:44:59: #1 total tags in treatment: 41241388 INFO @ Thu, 16 Apr 2020 02:44:59: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 02:44:59: #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 02:44:59: #1 tags after filtering in treatment: 41241388 INFO @ Thu, 16 Apr 2020 02:44:59: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 02:44:59: #1 finished! INFO @ Thu, 16 Apr 2020 02:44:59: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 02:44:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 02:45:00: 33000000 INFO @ Thu, 16 Apr 2020 02:45:02: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 02:45:02: 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 02:45:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.05_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/dm3/SRX5416209/SRX5416209.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 02:45:02: 35000000 INFO @ Thu, 16 Apr 2020 02:45:07: 34000000 INFO @ Thu, 16 Apr 2020 02:45:09: 36000000 INFO @ Thu, 16 Apr 2020 02:45:15: 35000000 INFO @ Thu, 16 Apr 2020 02:45:16: 37000000 INFO @ Thu, 16 Apr 2020 02:45:22: 38000000 INFO @ Thu, 16 Apr 2020 02:45:23: 36000000 INFO @ Thu, 16 Apr 2020 02:45:29: 39000000 INFO @ Thu, 16 Apr 2020 02:45:30: 37000000 INFO @ Thu, 16 Apr 2020 02:45:36: 40000000 INFO @ Thu, 16 Apr 2020 02:45:38: 38000000 INFO @ Thu, 16 Apr 2020 02:45:43: 41000000 INFO @ Thu, 16 Apr 2020 02:45:44: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 02:45:44: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 02:45:44: #1 total tags in treatment: 41241388 INFO @ Thu, 16 Apr 2020 02:45:44: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 02:45:44: #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 02:45:45: #1 tags after filtering in treatment: 41241388 INFO @ Thu, 16 Apr 2020 02:45:45: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 02:45:45: #1 finished! INFO @ Thu, 16 Apr 2020 02:45:45: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 02:45:45: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 02:45:45: 39000000 INFO @ Thu, 16 Apr 2020 02:45:48: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 02:45:48: 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 02:45:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.10_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/dm3/SRX5416209/SRX5416209.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 02:45:52: 40000000 INFO @ Thu, 16 Apr 2020 02:45:59: 41000000 INFO @ Thu, 16 Apr 2020 02:46:01: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 02:46:01: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 02:46:01: #1 total tags in treatment: 41241388 INFO @ Thu, 16 Apr 2020 02:46:01: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 02:46:01: #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 02:46:01: #1 tags after filtering in treatment: 41241388 INFO @ Thu, 16 Apr 2020 02:46:01: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 02:46:01: #1 finished! INFO @ Thu, 16 Apr 2020 02:46:01: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 02:46:01: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 02:46:04: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 02:46:04: 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 02:46:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.20_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/dm3/SRX5416209/SRX5416209.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5416209/SRX5416209.20_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。