Job ID = 6527900 SRX = SRX3159476 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:23:21 prefetch.2.10.7: 1) Downloading 'SRR6004206'... 2020-06-29T14:23:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:26:05 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:26:05 prefetch.2.10.7: 1) 'SRR6004206' was downloaded successfully 2020-06-29T14:26:05 prefetch.2.10.7: 'SRR6004206' has 0 unresolved dependencies Read 48383439 spots for SRR6004206/SRR6004206.sra Written 48383439 spots for SRR6004206/SRR6004206.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: 00:19:49 48383439 reads; of these: 48383439 (100.00%) were unpaired; of these: 1069159 (2.21%) aligned 0 times 33155198 (68.53%) aligned exactly 1 time 14159082 (29.26%) aligned >1 times 97.79% overall alignment rate Time searching: 00:19:49 Overall time: 00:19:49 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] 7129276 / 47314280 = 0.1507 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 00:09:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.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 00:09:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:09:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:09:30: 1000000 INFO @ Tue, 30 Jun 2020 00:09:34: 2000000 INFO @ Tue, 30 Jun 2020 00:09:39: 3000000 INFO @ Tue, 30 Jun 2020 00:09:44: 4000000 INFO @ Tue, 30 Jun 2020 00:09:48: 5000000 INFO @ Tue, 30 Jun 2020 00:09:53: 6000000 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 00:09:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.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 00:09:55: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:09:55: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:09:58: 7000000 INFO @ Tue, 30 Jun 2020 00:10:00: 1000000 INFO @ Tue, 30 Jun 2020 00:10:03: 8000000 INFO @ Tue, 30 Jun 2020 00:10:05: 2000000 INFO @ Tue, 30 Jun 2020 00:10:07: 9000000 INFO @ Tue, 30 Jun 2020 00:10:10: 3000000 INFO @ Tue, 30 Jun 2020 00:10:12: 10000000 INFO @ Tue, 30 Jun 2020 00:10:15: 4000000 INFO @ Tue, 30 Jun 2020 00:10:17: 11000000 INFO @ Tue, 30 Jun 2020 00:10:19: 5000000 INFO @ Tue, 30 Jun 2020 00:10:22: 12000000 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 00:10:24: 6000000 INFO @ Tue, 30 Jun 2020 00:10:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.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 00:10:25: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:10:25: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:10:27: 13000000 INFO @ Tue, 30 Jun 2020 00:10:29: 7000000 INFO @ Tue, 30 Jun 2020 00:10:30: 1000000 INFO @ Tue, 30 Jun 2020 00:10:32: 14000000 INFO @ Tue, 30 Jun 2020 00:10:34: 8000000 INFO @ Tue, 30 Jun 2020 00:10:35: 2000000 INFO @ Tue, 30 Jun 2020 00:10:37: 15000000 INFO @ Tue, 30 Jun 2020 00:10:39: 9000000 INFO @ Tue, 30 Jun 2020 00:10:40: 3000000 INFO @ Tue, 30 Jun 2020 00:10:42: 16000000 INFO @ Tue, 30 Jun 2020 00:10:44: 10000000 INFO @ Tue, 30 Jun 2020 00:10:44: 4000000 INFO @ Tue, 30 Jun 2020 00:10:46: 17000000 INFO @ Tue, 30 Jun 2020 00:10:49: 11000000 INFO @ Tue, 30 Jun 2020 00:10:49: 5000000 INFO @ Tue, 30 Jun 2020 00:10:51: 18000000 INFO @ Tue, 30 Jun 2020 00:10:54: 12000000 INFO @ Tue, 30 Jun 2020 00:10:54: 6000000 INFO @ Tue, 30 Jun 2020 00:10:56: 19000000 INFO @ Tue, 30 Jun 2020 00:10:59: 13000000 INFO @ Tue, 30 Jun 2020 00:10:59: 7000000 INFO @ Tue, 30 Jun 2020 00:11:01: 20000000 INFO @ Tue, 30 Jun 2020 00:11:04: 14000000 INFO @ Tue, 30 Jun 2020 00:11:04: 8000000 INFO @ Tue, 30 Jun 2020 00:11:06: 21000000 INFO @ Tue, 30 Jun 2020 00:11:09: 9000000 INFO @ Tue, 30 Jun 2020 00:11:09: 15000000 INFO @ Tue, 30 Jun 2020 00:11:11: 22000000 INFO @ Tue, 30 Jun 2020 00:11:13: 10000000 INFO @ Tue, 30 Jun 2020 00:11:14: 16000000 INFO @ Tue, 30 Jun 2020 00:11:16: 23000000 INFO @ Tue, 30 Jun 2020 00:11:18: 11000000 INFO @ Tue, 30 Jun 2020 00:11:18: 17000000 INFO @ Tue, 30 Jun 2020 00:11:21: 24000000 INFO @ Tue, 30 Jun 2020 00:11:23: 12000000 INFO @ Tue, 30 Jun 2020 00:11:23: 18000000 INFO @ Tue, 30 Jun 2020 00:11:26: 25000000 INFO @ Tue, 30 Jun 2020 00:11:28: 13000000 INFO @ Tue, 30 Jun 2020 00:11:28: 19000000 INFO @ Tue, 30 Jun 2020 00:11:30: 26000000 INFO @ Tue, 30 Jun 2020 00:11:33: 14000000 INFO @ Tue, 30 Jun 2020 00:11:33: 20000000 INFO @ Tue, 30 Jun 2020 00:11:35: 27000000 INFO @ Tue, 30 Jun 2020 00:11:37: 15000000 INFO @ Tue, 30 Jun 2020 00:11:38: 21000000 INFO @ Tue, 30 Jun 2020 00:11:40: 28000000 INFO @ Tue, 30 Jun 2020 00:11:42: 16000000 INFO @ Tue, 30 Jun 2020 00:11:43: 22000000 INFO @ Tue, 30 Jun 2020 00:11:45: 29000000 INFO @ Tue, 30 Jun 2020 00:11:47: 17000000 INFO @ Tue, 30 Jun 2020 00:11:48: 23000000 INFO @ Tue, 30 Jun 2020 00:11:50: 30000000 INFO @ Tue, 30 Jun 2020 00:11:52: 18000000 INFO @ Tue, 30 Jun 2020 00:11:52: 24000000 INFO @ Tue, 30 Jun 2020 00:11:54: 31000000 INFO @ Tue, 30 Jun 2020 00:11:57: 19000000 INFO @ Tue, 30 Jun 2020 00:11:57: 25000000 INFO @ Tue, 30 Jun 2020 00:11:59: 32000000 INFO @ Tue, 30 Jun 2020 00:12:02: 20000000 INFO @ Tue, 30 Jun 2020 00:12:02: 26000000 INFO @ Tue, 30 Jun 2020 00:12:04: 33000000 INFO @ Tue, 30 Jun 2020 00:12:06: 21000000 INFO @ Tue, 30 Jun 2020 00:12:07: 27000000 INFO @ Tue, 30 Jun 2020 00:12:09: 34000000 INFO @ Tue, 30 Jun 2020 00:12:11: 22000000 INFO @ Tue, 30 Jun 2020 00:12:12: 28000000 INFO @ Tue, 30 Jun 2020 00:12:14: 35000000 INFO @ Tue, 30 Jun 2020 00:12:16: 23000000 INFO @ Tue, 30 Jun 2020 00:12:17: 29000000 INFO @ Tue, 30 Jun 2020 00:12:19: 36000000 INFO @ Tue, 30 Jun 2020 00:12:21: 24000000 INFO @ Tue, 30 Jun 2020 00:12:22: 30000000 INFO @ Tue, 30 Jun 2020 00:12:24: 37000000 INFO @ Tue, 30 Jun 2020 00:12:26: 25000000 INFO @ Tue, 30 Jun 2020 00:12:26: 31000000 INFO @ Tue, 30 Jun 2020 00:12:29: 38000000 INFO @ Tue, 30 Jun 2020 00:12:30: 26000000 INFO @ Tue, 30 Jun 2020 00:12:31: 32000000 INFO @ Tue, 30 Jun 2020 00:12:34: 39000000 INFO @ Tue, 30 Jun 2020 00:12:35: 27000000 INFO @ Tue, 30 Jun 2020 00:12:36: 33000000 INFO @ Tue, 30 Jun 2020 00:12:39: 40000000 INFO @ Tue, 30 Jun 2020 00:12:40: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:12:40: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:12:40: #1 total tags in treatment: 40185004 INFO @ Tue, 30 Jun 2020 00:12:40: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:12:40: #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 00:12:40: 28000000 INFO @ Tue, 30 Jun 2020 00:12:41: #1 tags after filtering in treatment: 40185004 INFO @ Tue, 30 Jun 2020 00:12:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:12:41: #1 finished! INFO @ Tue, 30 Jun 2020 00:12:41: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:12:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:12:41: 34000000 INFO @ Tue, 30 Jun 2020 00:12:43: #2 number of paired peaks: 4 WARNING @ Tue, 30 Jun 2020 00:12:43: Too few paired peaks (4) 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 00:12:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.05_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/SRX3159476/SRX3159476.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:12:45: 29000000 INFO @ Tue, 30 Jun 2020 00:12:46: 35000000 INFO @ Tue, 30 Jun 2020 00:12:49: 30000000 INFO @ Tue, 30 Jun 2020 00:12:51: 36000000 INFO @ Tue, 30 Jun 2020 00:12:54: 31000000 INFO @ Tue, 30 Jun 2020 00:12:56: 37000000 INFO @ Tue, 30 Jun 2020 00:12:59: 32000000 INFO @ Tue, 30 Jun 2020 00:13:01: 38000000 INFO @ Tue, 30 Jun 2020 00:13:04: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:13:06: 39000000 INFO @ Tue, 30 Jun 2020 00:13:09: 34000000 INFO @ Tue, 30 Jun 2020 00:13:11: 40000000 INFO @ Tue, 30 Jun 2020 00:13:12: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:13:12: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:13:12: #1 total tags in treatment: 40185004 INFO @ Tue, 30 Jun 2020 00:13:12: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:13:12: #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 00:13:13: #1 tags after filtering in treatment: 40185004 INFO @ Tue, 30 Jun 2020 00:13:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:13:13: #1 finished! INFO @ Tue, 30 Jun 2020 00:13:13: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:13:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:13:13: 35000000 INFO @ Tue, 30 Jun 2020 00:13:15: #2 number of paired peaks: 4 WARNING @ Tue, 30 Jun 2020 00:13:15: Too few paired peaks (4) 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 00:13:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.10_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/SRX3159476/SRX3159476.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:13:18: 36000000 INFO @ Tue, 30 Jun 2020 00:13:23: 37000000 INFO @ Tue, 30 Jun 2020 00:13:28: 38000000 INFO @ Tue, 30 Jun 2020 00:13:33: 39000000 INFO @ Tue, 30 Jun 2020 00:13:37: 40000000 INFO @ Tue, 30 Jun 2020 00:13:39: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:13:39: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:13:39: #1 total tags in treatment: 40185004 INFO @ Tue, 30 Jun 2020 00:13:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:13:39: #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 00:13:39: #1 tags after filtering in treatment: 40185004 INFO @ Tue, 30 Jun 2020 00:13:39: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:13:39: #1 finished! INFO @ Tue, 30 Jun 2020 00:13:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:13:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:13:42: #2 number of paired peaks: 4 WARNING @ Tue, 30 Jun 2020 00:13:42: Too few paired peaks (4) 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 00:13:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.20_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/SRX3159476/SRX3159476.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159476/SRX3159476.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。