Job ID = 6527851 SRX = SRX287874 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:03:51 prefetch.2.10.7: 1) Downloading 'SRR870063'... 2020-06-29T14:03:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:08:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:08:51 prefetch.2.10.7: 1) 'SRR870063' was downloaded successfully Read 21014950 spots for SRR870063/SRR870063.sra Written 21014950 spots for SRR870063/SRR870063.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: 00:07:24 21014950 reads; of these: 21014950 (100.00%) were unpaired; of these: 1185169 (5.64%) aligned 0 times 14968727 (71.23%) aligned exactly 1 time 4861054 (23.13%) aligned >1 times 94.36% overall alignment rate Time searching: 00:07:24 Overall time: 00:07:24 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] 2682733 / 19829781 = 0.1353 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 23:28:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.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 23:28:09: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:28:09: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:28:16: 1000000 INFO @ Mon, 29 Jun 2020 23:28:22: 2000000 INFO @ Mon, 29 Jun 2020 23:28:28: 3000000 INFO @ Mon, 29 Jun 2020 23:28:34: 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 23:28:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.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 23:28:39: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:28:39: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:28:40: 5000000 INFO @ Mon, 29 Jun 2020 23:28:46: 1000000 INFO @ Mon, 29 Jun 2020 23:28:47: 6000000 INFO @ Mon, 29 Jun 2020 23:28:53: 2000000 INFO @ Mon, 29 Jun 2020 23:28:53: 7000000 INFO @ Mon, 29 Jun 2020 23:29:00: 3000000 INFO @ Mon, 29 Jun 2020 23:29:00: 8000000 INFO @ Mon, 29 Jun 2020 23:29:07: 4000000 INFO @ Mon, 29 Jun 2020 23:29:07: 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 23:29:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.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 23:29:10: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:29:10: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:29:14: 5000000 INFO @ Mon, 29 Jun 2020 23:29:14: 10000000 INFO @ Mon, 29 Jun 2020 23:29:18: 1000000 INFO @ Mon, 29 Jun 2020 23:29:22: 11000000 INFO @ Mon, 29 Jun 2020 23:29:22: 6000000 INFO @ Mon, 29 Jun 2020 23:29:26: 2000000 INFO @ Mon, 29 Jun 2020 23:29:29: 12000000 INFO @ Mon, 29 Jun 2020 23:29:29: 7000000 INFO @ Mon, 29 Jun 2020 23:29:34: 3000000 INFO @ Mon, 29 Jun 2020 23:29:37: 8000000 INFO @ Mon, 29 Jun 2020 23:29:37: 13000000 INFO @ Mon, 29 Jun 2020 23:29:42: 4000000 INFO @ Mon, 29 Jun 2020 23:29:45: 9000000 INFO @ Mon, 29 Jun 2020 23:29:45: 14000000 INFO @ Mon, 29 Jun 2020 23:29:50: 5000000 INFO @ Mon, 29 Jun 2020 23:29:52: 10000000 INFO @ Mon, 29 Jun 2020 23:29:53: 15000000 INFO @ Mon, 29 Jun 2020 23:29:58: 6000000 INFO @ Mon, 29 Jun 2020 23:30:00: 11000000 INFO @ Mon, 29 Jun 2020 23:30:00: 16000000 INFO @ Mon, 29 Jun 2020 23:30:07: 7000000 INFO @ Mon, 29 Jun 2020 23:30:07: 12000000 INFO @ Mon, 29 Jun 2020 23:30:08: 17000000 INFO @ Mon, 29 Jun 2020 23:30:09: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:30:09: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:30:09: #1 total tags in treatment: 17147048 INFO @ Mon, 29 Jun 2020 23:30:09: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:30:09: #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 23:30:09: #1 tags after filtering in treatment: 17147048 INFO @ Mon, 29 Jun 2020 23:30:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:30:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:30:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:30:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:30:10: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 23:30:10: Too few paired peaks (69) 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 23:30:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.05_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/SRX287874/SRX287874.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:30:15: 8000000 INFO @ Mon, 29 Jun 2020 23:30:15: 13000000 INFO @ Mon, 29 Jun 2020 23:30:22: 14000000 INFO @ Mon, 29 Jun 2020 23:30:23: 9000000 INFO @ Mon, 29 Jun 2020 23:30:30: 15000000 INFO @ Mon, 29 Jun 2020 23:30:31: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:30:38: 16000000 INFO @ Mon, 29 Jun 2020 23:30:39: 11000000 INFO @ Mon, 29 Jun 2020 23:30:45: 17000000 INFO @ Mon, 29 Jun 2020 23:30:46: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:30:46: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:30:46: #1 total tags in treatment: 17147048 INFO @ Mon, 29 Jun 2020 23:30:46: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:30:46: #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 23:30:46: #1 tags after filtering in treatment: 17147048 INFO @ Mon, 29 Jun 2020 23:30:46: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:30:46: #1 finished! INFO @ Mon, 29 Jun 2020 23:30:46: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:30:46: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:30:47: 12000000 INFO @ Mon, 29 Jun 2020 23:30:48: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 23:30:48: Too few paired peaks (69) 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 23:30:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.10_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/SRX287874/SRX287874.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:30:54: 13000000 INFO @ Mon, 29 Jun 2020 23:31:01: 14000000 INFO @ Mon, 29 Jun 2020 23:31:08: 15000000 INFO @ Mon, 29 Jun 2020 23:31:15: 16000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:31:22: 17000000 INFO @ Mon, 29 Jun 2020 23:31:23: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:31:23: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:31:23: #1 total tags in treatment: 17147048 INFO @ Mon, 29 Jun 2020 23:31:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:31:23: #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 23:31:23: #1 tags after filtering in treatment: 17147048 INFO @ Mon, 29 Jun 2020 23:31:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:31:23: #1 finished! INFO @ Mon, 29 Jun 2020 23:31:23: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:31:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:31:25: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 23:31:25: Too few paired peaks (69) 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 23:31:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.20_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/SRX287874/SRX287874.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287874/SRX287874.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling