Job ID = 6527713 SRX = SRX2399660 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:15:04 prefetch.2.10.7: 1) Downloading 'SRR5081494'... 2020-06-29T13:15:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:17:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:17:18 prefetch.2.10.7: 'SRR5081494' is valid 2020-06-29T13:17:18 prefetch.2.10.7: 1) 'SRR5081494' was downloaded successfully 2020-06-29T13:17:18 prefetch.2.10.7: 'SRR5081494' has 0 unresolved dependencies Read 17649244 spots for SRR5081494/SRR5081494.sra Written 17649244 spots for SRR5081494/SRR5081494.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: 00:05:53 17649244 reads; of these: 17649244 (100.00%) were unpaired; of these: 849847 (4.82%) aligned 0 times 11868958 (67.25%) aligned exactly 1 time 4930439 (27.94%) aligned >1 times 95.18% overall alignment rate Time searching: 00:05:53 Overall time: 00:05:53 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 1514809 / 16799397 = 0.0902 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 @ Mon, 29 Jun 2020 22:37:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.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 @ Mon, 29 Jun 2020 22:37:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:37:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:37:52: 1000000 INFO @ Mon, 29 Jun 2020 22:38:00: 2000000 INFO @ Mon, 29 Jun 2020 22:38:06: 3000000 INFO @ Mon, 29 Jun 2020 22:38:11: 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 @ Mon, 29 Jun 2020 22:38:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.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 @ Mon, 29 Jun 2020 22:38:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:38:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:38:17: 5000000 INFO @ Mon, 29 Jun 2020 22:38:22: 1000000 INFO @ Mon, 29 Jun 2020 22:38:23: 6000000 INFO @ Mon, 29 Jun 2020 22:38:28: 2000000 INFO @ Mon, 29 Jun 2020 22:38:30: 7000000 INFO @ Mon, 29 Jun 2020 22:38:34: 3000000 INFO @ Mon, 29 Jun 2020 22:38:36: 8000000 INFO @ Mon, 29 Jun 2020 22:38:40: 4000000 INFO @ Mon, 29 Jun 2020 22:38:42: 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 @ Mon, 29 Jun 2020 22:38:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.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 @ Mon, 29 Jun 2020 22:38:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:38:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:38:47: 5000000 INFO @ Mon, 29 Jun 2020 22:38:49: 10000000 INFO @ Mon, 29 Jun 2020 22:38:52: 1000000 INFO @ Mon, 29 Jun 2020 22:38:53: 6000000 INFO @ Mon, 29 Jun 2020 22:38:55: 11000000 INFO @ Mon, 29 Jun 2020 22:38:59: 2000000 INFO @ Mon, 29 Jun 2020 22:39:00: 7000000 INFO @ Mon, 29 Jun 2020 22:39:02: 12000000 INFO @ Mon, 29 Jun 2020 22:39:06: 3000000 INFO @ Mon, 29 Jun 2020 22:39:07: 8000000 INFO @ Mon, 29 Jun 2020 22:39:09: 13000000 INFO @ Mon, 29 Jun 2020 22:39:13: 4000000 INFO @ Mon, 29 Jun 2020 22:39:14: 9000000 INFO @ Mon, 29 Jun 2020 22:39:16: 14000000 INFO @ Mon, 29 Jun 2020 22:39:20: 5000000 INFO @ Mon, 29 Jun 2020 22:39:21: 10000000 INFO @ Mon, 29 Jun 2020 22:39:23: 15000000 INFO @ Mon, 29 Jun 2020 22:39:25: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:39:25: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:39:25: #1 total tags in treatment: 15284588 INFO @ Mon, 29 Jun 2020 22:39:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:39:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:39:26: #1 tags after filtering in treatment: 15284588 INFO @ Mon, 29 Jun 2020 22:39:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:39:26: #1 finished! INFO @ Mon, 29 Jun 2020 22:39:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:39:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:39:26: 6000000 INFO @ Mon, 29 Jun 2020 22:39:27: #2 number of paired peaks: 79 WARNING @ Mon, 29 Jun 2020 22:39:27: Too few paired peaks (79) 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 @ Mon, 29 Jun 2020 22:39:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.05_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/SRX2399660/SRX2399660.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:39:27: 11000000 INFO @ Mon, 29 Jun 2020 22:39:33: 7000000 INFO @ Mon, 29 Jun 2020 22:39:33: 12000000 INFO @ Mon, 29 Jun 2020 22:39:39: 8000000 INFO @ Mon, 29 Jun 2020 22:39:40: 13000000 INFO @ Mon, 29 Jun 2020 22:39:46: 9000000 INFO @ Mon, 29 Jun 2020 22:39:47: 14000000 INFO @ Mon, 29 Jun 2020 22:39:53: 10000000 INFO @ Mon, 29 Jun 2020 22:39:55: 15000000 INFO @ Mon, 29 Jun 2020 22:39:57: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:39:57: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:39:57: #1 total tags in treatment: 15284588 INFO @ Mon, 29 Jun 2020 22:39:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:39:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:39:57: #1 tags after filtering in treatment: 15284588 INFO @ Mon, 29 Jun 2020 22:39:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:39:57: #1 finished! INFO @ Mon, 29 Jun 2020 22:39:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:39:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:39:58: #2 number of paired peaks: 79 WARNING @ Mon, 29 Jun 2020 22:39:58: Too few paired peaks (79) 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 @ Mon, 29 Jun 2020 22:39:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.10_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/SRX2399660/SRX2399660.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:40:00: 11000000 INFO @ Mon, 29 Jun 2020 22:40:07: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:40:15: 13000000 INFO @ Mon, 29 Jun 2020 22:40:23: 14000000 INFO @ Mon, 29 Jun 2020 22:40:31: 15000000 INFO @ Mon, 29 Jun 2020 22:40:33: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:40:33: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:40:33: #1 total tags in treatment: 15284588 INFO @ Mon, 29 Jun 2020 22:40:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:40:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:40:33: #1 tags after filtering in treatment: 15284588 INFO @ Mon, 29 Jun 2020 22:40:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:40:33: #1 finished! INFO @ Mon, 29 Jun 2020 22:40:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:40:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:40:34: #2 number of paired peaks: 79 WARNING @ Mon, 29 Jun 2020 22:40:34: Too few paired peaks (79) 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 @ Mon, 29 Jun 2020 22:40:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.20_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/SRX2399660/SRX2399660.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2399660/SRX2399660.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。