Job ID = 6527722 SRX = SRX2520648 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:40:56 prefetch.2.10.7: 1) Downloading 'SRR5206767'... 2020-06-29T13:40:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:47:19 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:47:19 prefetch.2.10.7: 1) 'SRR5206767' was downloaded successfully Read 22710841 spots for SRR5206767/SRR5206767.sra Written 22710841 spots for SRR5206767/SRR5206767.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: 00:08:29 22710841 reads; of these: 22710841 (100.00%) were unpaired; of these: 521881 (2.30%) aligned 0 times 15420274 (67.90%) aligned exactly 1 time 6768686 (29.80%) aligned >1 times 97.70% overall alignment rate Time searching: 00:08:29 Overall time: 00:08:29 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] 5183621 / 22188960 = 0.2336 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 23:07:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.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 23:07:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:07:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:07:12: 1000000 INFO @ Mon, 29 Jun 2020 23:07:17: 2000000 INFO @ Mon, 29 Jun 2020 23:07:23: 3000000 INFO @ Mon, 29 Jun 2020 23:07:29: 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 23:07:35: 5000000 INFO @ Mon, 29 Jun 2020 23:07:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.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 23:07:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:07:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:07:41: 6000000 INFO @ Mon, 29 Jun 2020 23:07:42: 1000000 INFO @ Mon, 29 Jun 2020 23:07:48: 7000000 INFO @ Mon, 29 Jun 2020 23:07:49: 2000000 INFO @ Mon, 29 Jun 2020 23:07:54: 8000000 INFO @ Mon, 29 Jun 2020 23:07:55: 3000000 INFO @ Mon, 29 Jun 2020 23:08:00: 9000000 INFO @ Mon, 29 Jun 2020 23:08:02: 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 23:08:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.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 23:08:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:08:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:08:07: 10000000 INFO @ Mon, 29 Jun 2020 23:08:09: 5000000 INFO @ Mon, 29 Jun 2020 23:08:14: 11000000 INFO @ Mon, 29 Jun 2020 23:08:15: 1000000 INFO @ Mon, 29 Jun 2020 23:08:16: 6000000 INFO @ Mon, 29 Jun 2020 23:08:21: 12000000 INFO @ Mon, 29 Jun 2020 23:08:23: 2000000 INFO @ Mon, 29 Jun 2020 23:08:23: 7000000 INFO @ Mon, 29 Jun 2020 23:08:29: 13000000 INFO @ Mon, 29 Jun 2020 23:08:30: 8000000 INFO @ Mon, 29 Jun 2020 23:08:31: 3000000 INFO @ Mon, 29 Jun 2020 23:08:36: 14000000 INFO @ Mon, 29 Jun 2020 23:08:38: 9000000 INFO @ Mon, 29 Jun 2020 23:08:39: 4000000 INFO @ Mon, 29 Jun 2020 23:08:44: 15000000 INFO @ Mon, 29 Jun 2020 23:08:45: 10000000 INFO @ Mon, 29 Jun 2020 23:08:47: 5000000 INFO @ Mon, 29 Jun 2020 23:08:51: 16000000 INFO @ Mon, 29 Jun 2020 23:08:52: 11000000 INFO @ Mon, 29 Jun 2020 23:08:55: 6000000 INFO @ Mon, 29 Jun 2020 23:08:58: 17000000 INFO @ Mon, 29 Jun 2020 23:08:58: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:08:58: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:08:58: #1 total tags in treatment: 17005339 INFO @ Mon, 29 Jun 2020 23:08:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:08:58: #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 23:08:59: #1 tags after filtering in treatment: 17005339 INFO @ Mon, 29 Jun 2020 23:08:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:08:59: #1 finished! INFO @ Mon, 29 Jun 2020 23:08:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:08:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:09:00: 12000000 INFO @ Mon, 29 Jun 2020 23:09:00: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 23:09:00: Too few paired peaks (19) 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 23:09:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.05_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/SRX2520648/SRX2520648.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:09:03: 7000000 INFO @ Mon, 29 Jun 2020 23:09:07: 13000000 INFO @ Mon, 29 Jun 2020 23:09:11: 8000000 INFO @ Mon, 29 Jun 2020 23:09:14: 14000000 INFO @ Mon, 29 Jun 2020 23:09:19: 9000000 INFO @ Mon, 29 Jun 2020 23:09:22: 15000000 INFO @ Mon, 29 Jun 2020 23:09:28: 10000000 INFO @ Mon, 29 Jun 2020 23:09:29: 16000000 INFO @ Mon, 29 Jun 2020 23:09:36: 17000000 INFO @ Mon, 29 Jun 2020 23:09:36: 11000000 INFO @ Mon, 29 Jun 2020 23:09:36: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:09:36: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:09:36: #1 total tags in treatment: 17005339 INFO @ Mon, 29 Jun 2020 23:09:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:09:36: #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 23:09:36: #1 tags after filtering in treatment: 17005339 INFO @ Mon, 29 Jun 2020 23:09:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:09:36: #1 finished! INFO @ Mon, 29 Jun 2020 23:09:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:09:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:09:38: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 23:09:38: Too few paired peaks (19) 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 23:09:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.10_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/SRX2520648/SRX2520648.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:09:44: 12000000 INFO @ Mon, 29 Jun 2020 23:09:51: 13000000 INFO @ Mon, 29 Jun 2020 23:09:59: 14000000 INFO @ Mon, 29 Jun 2020 23:10:06: 15000000 INFO @ Mon, 29 Jun 2020 23:10:14: 16000000 INFO @ Mon, 29 Jun 2020 23:10:21: 17000000 INFO @ Mon, 29 Jun 2020 23:10:21: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:10:21: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:10:21: #1 total tags in treatment: 17005339 INFO @ Mon, 29 Jun 2020 23:10:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:10:21: #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 23:10:21: #1 tags after filtering in treatment: 17005339 INFO @ Mon, 29 Jun 2020 23:10:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:10:21: #1 finished! INFO @ Mon, 29 Jun 2020 23:10:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:10:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:10:22: #2 number of paired peaks: 19 WARNING @ Mon, 29 Jun 2020 23:10:22: Too few paired peaks (19) 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 23:10:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.20_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/SRX2520648/SRX2520648.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2520648/SRX2520648.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。