Job ID = 6528060 SRX = SRX3981695 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:29:51 prefetch.2.10.7: 1) Downloading 'SRR7050475'... 2020-06-29T14:29:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:31:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:31:02 prefetch.2.10.7: 'SRR7050475' is valid 2020-06-29T14:31:02 prefetch.2.10.7: 1) 'SRR7050475' was downloaded successfully 2020-06-29T14:31:02 prefetch.2.10.7: 'SRR7050475' has 0 unresolved dependencies Read 9564368 spots for SRR7050475/SRR7050475.sra Written 9564368 spots for SRR7050475/SRR7050475.sra 2020-06-29T14:31:45 prefetch.2.10.7: 1) Downloading 'SRR7050476'... 2020-06-29T14:31:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:33:04 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:33:04 prefetch.2.10.7: 'SRR7050476' is valid 2020-06-29T14:33:04 prefetch.2.10.7: 1) 'SRR7050476' was downloaded successfully 2020-06-29T14:33:04 prefetch.2.10.7: 'SRR7050476' has 0 unresolved dependencies Read 9566598 spots for SRR7050476/SRR7050476.sra Written 9566598 spots for SRR7050476/SRR7050476.sra 2020-06-29T14:33:43 prefetch.2.10.7: 1) Downloading 'SRR7050477'... 2020-06-29T14:33:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:34:50 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:34:50 prefetch.2.10.7: 'SRR7050477' is valid 2020-06-29T14:34:50 prefetch.2.10.7: 1) 'SRR7050477' was downloaded successfully 2020-06-29T14:34:50 prefetch.2.10.7: 'SRR7050477' has 0 unresolved dependencies Read 9608280 spots for SRR7050477/SRR7050477.sra Written 9608280 spots for SRR7050477/SRR7050477.sra 2020-06-29T14:35:33 prefetch.2.10.7: 1) Downloading 'SRR7050478'... 2020-06-29T14:35:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:36:30 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:36:30 prefetch.2.10.7: 'SRR7050478' is valid 2020-06-29T14:36:30 prefetch.2.10.7: 1) 'SRR7050478' was downloaded successfully 2020-06-29T14:36:30 prefetch.2.10.7: 'SRR7050478' has 0 unresolved dependencies Read 9637199 spots for SRR7050478/SRR7050478.sra Written 9637199 spots for SRR7050478/SRR7050478.sra 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: 00:11:33 38376445 reads; of these: 38376445 (100.00%) were unpaired; of these: 1018805 (2.65%) aligned 0 times 28248870 (73.61%) aligned exactly 1 time 9108770 (23.74%) aligned >1 times 97.35% overall alignment rate Time searching: 00:11:33 Overall time: 00:11:33 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 16 files... [bam_rmdupse_core] 4659667 / 37357640 = 0.1247 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 @ Tue, 30 Jun 2020 00:03:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.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 @ Tue, 30 Jun 2020 00:03:49: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:03:49: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:03:54: 1000000 INFO @ Tue, 30 Jun 2020 00:04:00: 2000000 INFO @ Tue, 30 Jun 2020 00:04:06: 3000000 INFO @ Tue, 30 Jun 2020 00:04:12: 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 @ Tue, 30 Jun 2020 00:04:17: 5000000 INFO @ Tue, 30 Jun 2020 00:04:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.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 @ Tue, 30 Jun 2020 00:04:19: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:04:19: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:04:24: 6000000 INFO @ Tue, 30 Jun 2020 00:04:27: 1000000 INFO @ Tue, 30 Jun 2020 00:04:31: 7000000 INFO @ Tue, 30 Jun 2020 00:04:34: 2000000 INFO @ Tue, 30 Jun 2020 00:04:38: 8000000 INFO @ Tue, 30 Jun 2020 00:04:42: 3000000 INFO @ Tue, 30 Jun 2020 00:04:45: 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 @ Tue, 30 Jun 2020 00:04:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.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 @ Tue, 30 Jun 2020 00:04:49: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:04:49: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:04:51: 4000000 INFO @ Tue, 30 Jun 2020 00:04:52: 10000000 INFO @ Tue, 30 Jun 2020 00:04:56: 1000000 INFO @ Tue, 30 Jun 2020 00:04:59: 5000000 INFO @ Tue, 30 Jun 2020 00:05:00: 11000000 INFO @ Tue, 30 Jun 2020 00:05:03: 2000000 INFO @ Tue, 30 Jun 2020 00:05:07: 6000000 INFO @ Tue, 30 Jun 2020 00:05:07: 12000000 INFO @ Tue, 30 Jun 2020 00:05:11: 3000000 INFO @ Tue, 30 Jun 2020 00:05:14: 13000000 INFO @ Tue, 30 Jun 2020 00:05:15: 7000000 INFO @ Tue, 30 Jun 2020 00:05:18: 4000000 INFO @ Tue, 30 Jun 2020 00:05:22: 14000000 INFO @ Tue, 30 Jun 2020 00:05:23: 8000000 INFO @ Tue, 30 Jun 2020 00:05:25: 5000000 INFO @ Tue, 30 Jun 2020 00:05:29: 15000000 INFO @ Tue, 30 Jun 2020 00:05:30: 9000000 INFO @ Tue, 30 Jun 2020 00:05:33: 6000000 INFO @ Tue, 30 Jun 2020 00:05:36: 16000000 INFO @ Tue, 30 Jun 2020 00:05:38: 10000000 INFO @ Tue, 30 Jun 2020 00:05:40: 7000000 INFO @ Tue, 30 Jun 2020 00:05:43: 17000000 INFO @ Tue, 30 Jun 2020 00:05:46: 11000000 INFO @ Tue, 30 Jun 2020 00:05:47: 8000000 INFO @ Tue, 30 Jun 2020 00:05:51: 18000000 INFO @ Tue, 30 Jun 2020 00:05:54: 12000000 INFO @ Tue, 30 Jun 2020 00:05:54: 9000000 INFO @ Tue, 30 Jun 2020 00:05:58: 19000000 INFO @ Tue, 30 Jun 2020 00:06:02: 10000000 INFO @ Tue, 30 Jun 2020 00:06:02: 13000000 INFO @ Tue, 30 Jun 2020 00:06:05: 20000000 INFO @ Tue, 30 Jun 2020 00:06:09: 11000000 INFO @ Tue, 30 Jun 2020 00:06:10: 14000000 INFO @ Tue, 30 Jun 2020 00:06:12: 21000000 INFO @ Tue, 30 Jun 2020 00:06:16: 12000000 INFO @ Tue, 30 Jun 2020 00:06:18: 15000000 INFO @ Tue, 30 Jun 2020 00:06:20: 22000000 INFO @ Tue, 30 Jun 2020 00:06:23: 13000000 INFO @ Tue, 30 Jun 2020 00:06:26: 16000000 INFO @ Tue, 30 Jun 2020 00:06:27: 23000000 INFO @ Tue, 30 Jun 2020 00:06:30: 14000000 INFO @ Tue, 30 Jun 2020 00:06:34: 17000000 INFO @ Tue, 30 Jun 2020 00:06:34: 24000000 INFO @ Tue, 30 Jun 2020 00:06:38: 15000000 INFO @ Tue, 30 Jun 2020 00:06:41: 25000000 INFO @ Tue, 30 Jun 2020 00:06:42: 18000000 INFO @ Tue, 30 Jun 2020 00:06:45: 16000000 INFO @ Tue, 30 Jun 2020 00:06:49: 26000000 INFO @ Tue, 30 Jun 2020 00:06:50: 19000000 INFO @ Tue, 30 Jun 2020 00:06:52: 17000000 INFO @ Tue, 30 Jun 2020 00:06:56: 27000000 INFO @ Tue, 30 Jun 2020 00:06:58: 20000000 INFO @ Tue, 30 Jun 2020 00:06:59: 18000000 INFO @ Tue, 30 Jun 2020 00:07:03: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:07:06: 21000000 INFO @ Tue, 30 Jun 2020 00:07:07: 19000000 INFO @ Tue, 30 Jun 2020 00:07:11: 29000000 INFO @ Tue, 30 Jun 2020 00:07:14: 20000000 INFO @ Tue, 30 Jun 2020 00:07:14: 22000000 INFO @ Tue, 30 Jun 2020 00:07:18: 30000000 INFO @ Tue, 30 Jun 2020 00:07:21: 21000000 INFO @ Tue, 30 Jun 2020 00:07:22: 23000000 INFO @ Tue, 30 Jun 2020 00:07:25: 31000000 INFO @ Tue, 30 Jun 2020 00:07:28: 22000000 INFO @ Tue, 30 Jun 2020 00:07:30: 24000000 INFO @ Tue, 30 Jun 2020 00:07:33: 32000000 INFO @ Tue, 30 Jun 2020 00:07:35: 23000000 INFO @ Tue, 30 Jun 2020 00:07:38: 25000000 INFO @ Tue, 30 Jun 2020 00:07:38: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:07:38: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:07:38: #1 total tags in treatment: 32697973 INFO @ Tue, 30 Jun 2020 00:07:38: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:07:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:07:39: #1 tags after filtering in treatment: 32697973 INFO @ Tue, 30 Jun 2020 00:07:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:07:39: #1 finished! INFO @ Tue, 30 Jun 2020 00:07:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:07:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:07:40: #2 number of paired peaks: 41 WARNING @ Tue, 30 Jun 2020 00:07:40: Too few paired peaks (41) 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 @ Tue, 30 Jun 2020 00:07:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.05_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/SRX3981695/SRX3981695.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:07:43: 24000000 INFO @ Tue, 30 Jun 2020 00:07:45: 26000000 INFO @ Tue, 30 Jun 2020 00:07:50: 25000000 INFO @ Tue, 30 Jun 2020 00:07:53: 27000000 INFO @ Tue, 30 Jun 2020 00:07:57: 26000000 INFO @ Tue, 30 Jun 2020 00:08:01: 28000000 INFO @ Tue, 30 Jun 2020 00:08:04: 27000000 INFO @ Tue, 30 Jun 2020 00:08:08: 29000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:08:11: 28000000 INFO @ Tue, 30 Jun 2020 00:08:16: 30000000 INFO @ Tue, 30 Jun 2020 00:08:19: 29000000 INFO @ Tue, 30 Jun 2020 00:08:24: 31000000 INFO @ Tue, 30 Jun 2020 00:08:26: 30000000 INFO @ Tue, 30 Jun 2020 00:08:31: 32000000 INFO @ Tue, 30 Jun 2020 00:08:33: 31000000 INFO @ Tue, 30 Jun 2020 00:08:37: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:08:37: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:08:37: #1 total tags in treatment: 32697973 INFO @ Tue, 30 Jun 2020 00:08:37: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:08:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:08:37: #1 tags after filtering in treatment: 32697973 INFO @ Tue, 30 Jun 2020 00:08:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:08:37: #1 finished! INFO @ Tue, 30 Jun 2020 00:08:37: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:08:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:08:39: #2 number of paired peaks: 41 WARNING @ Tue, 30 Jun 2020 00:08:39: Too few paired peaks (41) 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 @ Tue, 30 Jun 2020 00:08:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.10_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/SRX3981695/SRX3981695.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:08:40: 32000000 INFO @ Tue, 30 Jun 2020 00:08:44: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:08:44: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:08:44: #1 total tags in treatment: 32697973 INFO @ Tue, 30 Jun 2020 00:08:44: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:08:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:08:45: #1 tags after filtering in treatment: 32697973 INFO @ Tue, 30 Jun 2020 00:08:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:08:45: #1 finished! INFO @ Tue, 30 Jun 2020 00:08:45: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:08:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:08:47: #2 number of paired peaks: 41 WARNING @ Tue, 30 Jun 2020 00:08:47: Too few paired peaks (41) 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 @ Tue, 30 Jun 2020 00:08:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.20_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/dm3/SRX3981695/SRX3981695.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3981695/SRX3981695.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling