Job ID = 6527937 SRX = SRX331375 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:01:22 prefetch.2.10.7: 1) Downloading 'SRR947612'... 2020-06-29T14:01:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:07:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:07:22 prefetch.2.10.7: 1) 'SRR947612' was downloaded successfully Read 22948262 spots for SRR947612/SRR947612.sra Written 22948262 spots for SRR947612/SRR947612.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: 00:07:06 22948262 reads; of these: 22948262 (100.00%) were unpaired; of these: 1477353 (6.44%) aligned 0 times 16603321 (72.35%) aligned exactly 1 time 4867588 (21.21%) aligned >1 times 93.56% overall alignment rate Time searching: 00:07:06 Overall time: 00:07:06 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] 4799475 / 21470909 = 0.2235 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 23:26:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.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 23:26:10: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:26:10: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:26:17: 1000000 INFO @ Mon, 29 Jun 2020 23:26:23: 2000000 INFO @ Mon, 29 Jun 2020 23:26:30: 3000000 INFO @ Mon, 29 Jun 2020 23:26:37: 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 23:26:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.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 23:26:40: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:26:40: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:26:43: 5000000 INFO @ Mon, 29 Jun 2020 23:26:47: 1000000 INFO @ Mon, 29 Jun 2020 23:26:50: 6000000 INFO @ Mon, 29 Jun 2020 23:26:53: 2000000 INFO @ Mon, 29 Jun 2020 23:26:58: 7000000 INFO @ Mon, 29 Jun 2020 23:27:00: 3000000 INFO @ Mon, 29 Jun 2020 23:27:05: 8000000 INFO @ Mon, 29 Jun 2020 23:27:06: 4000000 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 23:27:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.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 23:27:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:27:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:27:12: 9000000 INFO @ Mon, 29 Jun 2020 23:27:13: 5000000 INFO @ Mon, 29 Jun 2020 23:27:18: 1000000 INFO @ Mon, 29 Jun 2020 23:27:19: 10000000 INFO @ Mon, 29 Jun 2020 23:27:19: 6000000 INFO @ Mon, 29 Jun 2020 23:27:24: 2000000 INFO @ Mon, 29 Jun 2020 23:27:26: 7000000 INFO @ Mon, 29 Jun 2020 23:27:27: 11000000 INFO @ Mon, 29 Jun 2020 23:27:31: 3000000 INFO @ Mon, 29 Jun 2020 23:27:33: 8000000 INFO @ Mon, 29 Jun 2020 23:27:34: 12000000 INFO @ Mon, 29 Jun 2020 23:27:39: 4000000 INFO @ Mon, 29 Jun 2020 23:27:39: 9000000 INFO @ Mon, 29 Jun 2020 23:27:42: 13000000 INFO @ Mon, 29 Jun 2020 23:27:45: 5000000 INFO @ Mon, 29 Jun 2020 23:27:46: 10000000 INFO @ Mon, 29 Jun 2020 23:27:49: 14000000 INFO @ Mon, 29 Jun 2020 23:27:52: 6000000 INFO @ Mon, 29 Jun 2020 23:27:53: 11000000 INFO @ Mon, 29 Jun 2020 23:27:56: 15000000 INFO @ Mon, 29 Jun 2020 23:28:00: 12000000 INFO @ Mon, 29 Jun 2020 23:28:00: 7000000 INFO @ Mon, 29 Jun 2020 23:28:04: 16000000 INFO @ Mon, 29 Jun 2020 23:28:06: 13000000 INFO @ Mon, 29 Jun 2020 23:28:07: 8000000 INFO @ Mon, 29 Jun 2020 23:28:08: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:28:08: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:28:08: #1 total tags in treatment: 16671434 INFO @ Mon, 29 Jun 2020 23:28:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:28:08: #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 23:28:09: #1 tags after filtering in treatment: 16671434 INFO @ Mon, 29 Jun 2020 23:28:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:28:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:28:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:28:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:28:10: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 23:28:10: Too few paired peaks (40) 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 23:28:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.05_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/SRX331375/SRX331375.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:28:13: 14000000 INFO @ Mon, 29 Jun 2020 23:28:14: 9000000 INFO @ Mon, 29 Jun 2020 23:28:20: 15000000 INFO @ Mon, 29 Jun 2020 23:28:21: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:28:27: 16000000 INFO @ Mon, 29 Jun 2020 23:28:28: 11000000 INFO @ Mon, 29 Jun 2020 23:28:32: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:28:32: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:28:32: #1 total tags in treatment: 16671434 INFO @ Mon, 29 Jun 2020 23:28:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:28:32: #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 23:28:32: #1 tags after filtering in treatment: 16671434 INFO @ Mon, 29 Jun 2020 23:28:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:28:32: #1 finished! INFO @ Mon, 29 Jun 2020 23:28:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:28:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:28:33: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 23:28:33: Too few paired peaks (40) 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 23:28:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.10_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/SRX331375/SRX331375.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:28:35: 12000000 INFO @ Mon, 29 Jun 2020 23:28:42: 13000000 INFO @ Mon, 29 Jun 2020 23:28:49: 14000000 INFO @ Mon, 29 Jun 2020 23:28:56: 15000000 INFO @ Mon, 29 Jun 2020 23:29:03: 16000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:29:07: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:29:07: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:29:07: #1 total tags in treatment: 16671434 INFO @ Mon, 29 Jun 2020 23:29:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:29:07: #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 23:29:07: #1 tags after filtering in treatment: 16671434 INFO @ Mon, 29 Jun 2020 23:29:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:29:07: #1 finished! INFO @ Mon, 29 Jun 2020 23:29:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:29:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:29:08: #2 number of paired peaks: 40 WARNING @ Mon, 29 Jun 2020 23:29:08: Too few paired peaks (40) 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 23:29:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.20_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/SRX331375/SRX331375.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX331375/SRX331375.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling