Job ID = 6527454 SRX = SRX013041 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:14:51 prefetch.2.10.7: 1) Downloading 'SRR030307'... 2020-06-29T12:14:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:15:56 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:15:56 prefetch.2.10.7: 'SRR030307' is valid 2020-06-29T12:15:56 prefetch.2.10.7: 1) 'SRR030307' was downloaded successfully Read 7920082 spots for SRR030307/SRR030307.sra Written 7920082 spots for SRR030307/SRR030307.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: 00:00:01 Multiseed full-index search: 00:01:41 7920082 reads; of these: 7920082 (100.00%) were unpaired; of these: 1267094 (16.00%) aligned 0 times 5331105 (67.31%) aligned exactly 1 time 1321883 (16.69%) aligned >1 times 84.00% overall alignment rate Time searching: 00:01:42 Overall time: 00:01:42 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_rmdupse_core] 380352 / 6652988 = 0.0572 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 21:21:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.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 21:21:49: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:21:49: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:21:53: 1000000 INFO @ Mon, 29 Jun 2020 21:21:57: 2000000 INFO @ Mon, 29 Jun 2020 21:22:02: 3000000 INFO @ Mon, 29 Jun 2020 21:22:06: 4000000 INFO @ Mon, 29 Jun 2020 21:22:10: 5000000 INFO @ Mon, 29 Jun 2020 21:22:15: 6000000 INFO @ Mon, 29 Jun 2020 21:22:16: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:22:16: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:22:16: #1 total tags in treatment: 6272636 INFO @ Mon, 29 Jun 2020 21:22:16: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:22:16: #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 21:22:16: #1 tags after filtering in treatment: 6272636 INFO @ Mon, 29 Jun 2020 21:22:16: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:22:16: #1 finished! INFO @ Mon, 29 Jun 2020 21:22:16: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:22:16: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:22:17: #2 number of paired peaks: 17 WARNING @ Mon, 29 Jun 2020 21:22:17: Too few paired peaks (17) 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 21:22:17: Process for pairing-model is terminated! 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 cut: /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.05_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/SRX013041/SRX013041.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:22:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.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 21:22:19: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:22:19: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:22:23: 1000000 INFO @ Mon, 29 Jun 2020 21:22:28: 2000000 INFO @ Mon, 29 Jun 2020 21:22:32: 3000000 INFO @ Mon, 29 Jun 2020 21:22:36: 4000000 INFO @ Mon, 29 Jun 2020 21:22:41: 5000000 INFO @ Mon, 29 Jun 2020 21:22:45: 6000000 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 21:22:47: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:22:47: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:22:47: #1 total tags in treatment: 6272636 INFO @ Mon, 29 Jun 2020 21:22:47: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:22:47: #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 21:22:47: #1 tags after filtering in treatment: 6272636 INFO @ Mon, 29 Jun 2020 21:22:47: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:22:47: #1 finished! INFO @ Mon, 29 Jun 2020 21:22:47: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:22:47: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:22:47: #2 number of paired peaks: 17 WARNING @ Mon, 29 Jun 2020 21:22:47: Too few paired peaks (17) 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 21:22:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.10_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/SRX013041/SRX013041.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:22:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.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 21:22:49: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:22:49: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:22:53: 1000000 INFO @ Mon, 29 Jun 2020 21:22:58: 2000000 INFO @ Mon, 29 Jun 2020 21:23:02: 3000000 INFO @ Mon, 29 Jun 2020 21:23:06: 4000000 INFO @ Mon, 29 Jun 2020 21:23:11: 5000000 INFO @ Mon, 29 Jun 2020 21:23:15: 6000000 INFO @ Mon, 29 Jun 2020 21:23:16: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:23:16: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:23:16: #1 total tags in treatment: 6272636 INFO @ Mon, 29 Jun 2020 21:23:16: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:23:16: #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 21:23:17: #1 tags after filtering in treatment: 6272636 INFO @ Mon, 29 Jun 2020 21:23:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:23:17: #1 finished! INFO @ Mon, 29 Jun 2020 21:23:17: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:23:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:23:17: #2 number of paired peaks: 17 WARNING @ Mon, 29 Jun 2020 21:23:17: Too few paired peaks (17) 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 21:23:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.20_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/SRX013041/SRX013041.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX013041/SRX013041.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。