Job ID = 6528315 SRX = SRX5343135 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:04:09 prefetch.2.10.7: 1) Downloading 'SRR8540835'... 2020-06-29T15:04:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:07:16 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:07:16 prefetch.2.10.7: 1) 'SRR8540835' was downloaded successfully 2020-06-29T15:07:16 prefetch.2.10.7: 'SRR8540835' has 0 unresolved dependencies Read 26063129 spots for SRR8540835/SRR8540835.sra Written 26063129 spots for SRR8540835/SRR8540835.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: 00:11:30 26063129 reads; of these: 26063129 (100.00%) were unpaired; of these: 786102 (3.02%) aligned 0 times 17582451 (67.46%) aligned exactly 1 time 7694576 (29.52%) aligned >1 times 96.98% overall alignment rate Time searching: 00:11:30 Overall time: 00:11:30 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 12 files... [bam_rmdupse_core] 2820411 / 25277027 = 0.1116 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 00:37:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.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 00:37:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:37:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:37:33: 1000000 INFO @ Tue, 30 Jun 2020 00:37:39: 2000000 INFO @ Tue, 30 Jun 2020 00:37:45: 3000000 INFO @ Tue, 30 Jun 2020 00:37:52: 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 00:37:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.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 00:37:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:37:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:37:58: 5000000 INFO @ Tue, 30 Jun 2020 00:38:03: 1000000 INFO @ Tue, 30 Jun 2020 00:38:04: 6000000 INFO @ Tue, 30 Jun 2020 00:38:09: 2000000 INFO @ Tue, 30 Jun 2020 00:38:10: 7000000 INFO @ Tue, 30 Jun 2020 00:38:15: 3000000 INFO @ Tue, 30 Jun 2020 00:38:17: 8000000 INFO @ Tue, 30 Jun 2020 00:38:21: 4000000 INFO @ Tue, 30 Jun 2020 00:38:23: 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 00:38:27: 5000000 INFO @ Tue, 30 Jun 2020 00:38:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.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 00:38:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:38:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:38:29: 10000000 INFO @ Tue, 30 Jun 2020 00:38:33: 6000000 INFO @ Tue, 30 Jun 2020 00:38:34: 1000000 INFO @ Tue, 30 Jun 2020 00:38:35: 11000000 INFO @ Tue, 30 Jun 2020 00:38:40: 7000000 INFO @ Tue, 30 Jun 2020 00:38:40: 2000000 INFO @ Tue, 30 Jun 2020 00:38:41: 12000000 INFO @ Tue, 30 Jun 2020 00:38:46: 8000000 INFO @ Tue, 30 Jun 2020 00:38:46: 3000000 INFO @ Tue, 30 Jun 2020 00:38:47: 13000000 INFO @ Tue, 30 Jun 2020 00:38:52: 9000000 INFO @ Tue, 30 Jun 2020 00:38:52: 4000000 INFO @ Tue, 30 Jun 2020 00:38:54: 14000000 INFO @ Tue, 30 Jun 2020 00:38:58: 10000000 INFO @ Tue, 30 Jun 2020 00:38:59: 5000000 INFO @ Tue, 30 Jun 2020 00:39:00: 15000000 INFO @ Tue, 30 Jun 2020 00:39:04: 11000000 INFO @ Tue, 30 Jun 2020 00:39:05: 6000000 INFO @ Tue, 30 Jun 2020 00:39:06: 16000000 INFO @ Tue, 30 Jun 2020 00:39:10: 12000000 INFO @ Tue, 30 Jun 2020 00:39:11: 7000000 INFO @ Tue, 30 Jun 2020 00:39:13: 17000000 INFO @ Tue, 30 Jun 2020 00:39:16: 13000000 INFO @ Tue, 30 Jun 2020 00:39:18: 8000000 INFO @ Tue, 30 Jun 2020 00:39:19: 18000000 INFO @ Tue, 30 Jun 2020 00:39:23: 14000000 INFO @ Tue, 30 Jun 2020 00:39:24: 9000000 INFO @ Tue, 30 Jun 2020 00:39:25: 19000000 INFO @ Tue, 30 Jun 2020 00:39:29: 15000000 INFO @ Tue, 30 Jun 2020 00:39:30: 10000000 INFO @ Tue, 30 Jun 2020 00:39:31: 20000000 INFO @ Tue, 30 Jun 2020 00:39:35: 16000000 INFO @ Tue, 30 Jun 2020 00:39:36: 11000000 INFO @ Tue, 30 Jun 2020 00:39:37: 21000000 INFO @ Tue, 30 Jun 2020 00:39:41: 17000000 INFO @ Tue, 30 Jun 2020 00:39:42: 12000000 INFO @ Tue, 30 Jun 2020 00:39:44: 22000000 INFO @ Tue, 30 Jun 2020 00:39:47: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:39:47: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:39:47: #1 total tags in treatment: 22456616 INFO @ Tue, 30 Jun 2020 00:39:47: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:39:47: #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 00:39:47: 18000000 INFO @ Tue, 30 Jun 2020 00:39:47: #1 tags after filtering in treatment: 22456616 INFO @ Tue, 30 Jun 2020 00:39:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:39:47: #1 finished! INFO @ Tue, 30 Jun 2020 00:39:47: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:39:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:39:48: #2 number of paired peaks: 90 WARNING @ Tue, 30 Jun 2020 00:39:48: Too few paired peaks (90) 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 00:39:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:39:49: 13000000 INFO @ Tue, 30 Jun 2020 00:39:53: 19000000 INFO @ Tue, 30 Jun 2020 00:39:55: 14000000 INFO @ Tue, 30 Jun 2020 00:39:59: 20000000 INFO @ Tue, 30 Jun 2020 00:40:01: 15000000 INFO @ Tue, 30 Jun 2020 00:40:05: 21000000 INFO @ Tue, 30 Jun 2020 00:40:07: 16000000 INFO @ Tue, 30 Jun 2020 00:40:11: 22000000 INFO @ Tue, 30 Jun 2020 00:40:13: 17000000 INFO @ Tue, 30 Jun 2020 00:40:14: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:40:14: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:40:14: #1 total tags in treatment: 22456616 INFO @ Tue, 30 Jun 2020 00:40:14: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:40:14: #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 00:40:14: #1 tags after filtering in treatment: 22456616 INFO @ Tue, 30 Jun 2020 00:40:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:40:14: #1 finished! INFO @ Tue, 30 Jun 2020 00:40:14: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:40:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:40:16: #2 number of paired peaks: 90 WARNING @ Tue, 30 Jun 2020 00:40:16: Too few paired peaks (90) 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 00:40:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.10_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/SRX5343135/SRX5343135.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:40:19: 18000000 INFO @ Tue, 30 Jun 2020 00:40:24: 19000000 INFO @ Tue, 30 Jun 2020 00:40:30: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:40:36: 21000000 INFO @ Tue, 30 Jun 2020 00:40:41: 22000000 INFO @ Tue, 30 Jun 2020 00:40:44: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:40:44: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:40:44: #1 total tags in treatment: 22456616 INFO @ Tue, 30 Jun 2020 00:40:44: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:40:44: #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 00:40:44: #1 tags after filtering in treatment: 22456616 INFO @ Tue, 30 Jun 2020 00:40:44: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:40:44: #1 finished! INFO @ Tue, 30 Jun 2020 00:40:44: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:40:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:40:46: #2 number of paired peaks: 90 WARNING @ Tue, 30 Jun 2020 00:40:46: Too few paired peaks (90) 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 00:40:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.20_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/SRX5343135/SRX5343135.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343135/SRX5343135.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。