Job ID = 6527842 SRX = SRX287849 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:28:07 prefetch.2.10.7: 1) Downloading 'SRR870038'... 2020-06-29T13:28:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:32:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:32:33 prefetch.2.10.7: 1) 'SRR870038' was downloaded successfully Read 21823290 spots for SRR870038/SRR870038.sra Written 21823290 spots for SRR870038/SRR870038.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: 00:06:55 21823290 reads; of these: 21823290 (100.00%) were unpaired; of these: 1252954 (5.74%) aligned 0 times 15593462 (71.45%) aligned exactly 1 time 4976874 (22.81%) aligned >1 times 94.26% overall alignment rate Time searching: 00:06:55 Overall time: 00:06:55 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] 2260417 / 20570336 = 0.1099 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 22:50:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.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 22:50:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:37: 1000000 INFO @ Mon, 29 Jun 2020 22:50:42: 2000000 INFO @ Mon, 29 Jun 2020 22:50:47: 3000000 INFO @ Mon, 29 Jun 2020 22:50:52: 4000000 INFO @ Mon, 29 Jun 2020 22:50:57: 5000000 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 22:51:02: 6000000 INFO @ Mon, 29 Jun 2020 22:51:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.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 22:51:02: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:51:02: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:51:07: 7000000 INFO @ Mon, 29 Jun 2020 22:51:07: 1000000 INFO @ Mon, 29 Jun 2020 22:51:12: 8000000 INFO @ Mon, 29 Jun 2020 22:51:12: 2000000 INFO @ Mon, 29 Jun 2020 22:51:17: 9000000 INFO @ Mon, 29 Jun 2020 22:51:17: 3000000 INFO @ Mon, 29 Jun 2020 22:51:21: 10000000 INFO @ Mon, 29 Jun 2020 22:51:22: 4000000 INFO @ Mon, 29 Jun 2020 22:51:26: 11000000 INFO @ Mon, 29 Jun 2020 22:51:27: 5000000 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 22:51:31: 12000000 INFO @ Mon, 29 Jun 2020 22:51:32: 6000000 INFO @ Mon, 29 Jun 2020 22:51:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.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 22:51:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:51:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:51:36: 13000000 INFO @ Mon, 29 Jun 2020 22:51:37: 7000000 INFO @ Mon, 29 Jun 2020 22:51:37: 1000000 INFO @ Mon, 29 Jun 2020 22:51:40: 14000000 INFO @ Mon, 29 Jun 2020 22:51:42: 8000000 INFO @ Mon, 29 Jun 2020 22:51:42: 2000000 INFO @ Mon, 29 Jun 2020 22:51:45: 15000000 INFO @ Mon, 29 Jun 2020 22:51:47: 9000000 INFO @ Mon, 29 Jun 2020 22:51:47: 3000000 INFO @ Mon, 29 Jun 2020 22:51:50: 16000000 INFO @ Mon, 29 Jun 2020 22:51:51: 10000000 INFO @ Mon, 29 Jun 2020 22:51:53: 4000000 INFO @ Mon, 29 Jun 2020 22:51:55: 17000000 INFO @ Mon, 29 Jun 2020 22:51:56: 11000000 INFO @ Mon, 29 Jun 2020 22:51:58: 5000000 INFO @ Mon, 29 Jun 2020 22:51:59: 18000000 INFO @ Mon, 29 Jun 2020 22:52:01: 12000000 INFO @ Mon, 29 Jun 2020 22:52:01: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:52:01: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:52:01: #1 total tags in treatment: 18309919 INFO @ Mon, 29 Jun 2020 22:52:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:01: #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 22:52:01: #1 tags after filtering in treatment: 18309919 INFO @ Mon, 29 Jun 2020 22:52:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:01: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:02: #2 number of paired peaks: 35 WARNING @ Mon, 29 Jun 2020 22:52:02: Too few paired peaks (35) 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 22:52:02: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 22:52:02: 6000000 cut: /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.05_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/SRX287849/SRX287849.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:05: 13000000 INFO @ Mon, 29 Jun 2020 22:52:07: 7000000 INFO @ Mon, 29 Jun 2020 22:52:10: 14000000 INFO @ Mon, 29 Jun 2020 22:52:12: 8000000 INFO @ Mon, 29 Jun 2020 22:52:15: 15000000 INFO @ Mon, 29 Jun 2020 22:52:17: 9000000 INFO @ Mon, 29 Jun 2020 22:52:20: 16000000 INFO @ Mon, 29 Jun 2020 22:52:22: 10000000 INFO @ Mon, 29 Jun 2020 22:52:24: 17000000 INFO @ Mon, 29 Jun 2020 22:52:26: 11000000 INFO @ Mon, 29 Jun 2020 22:52:29: 18000000 INFO @ Mon, 29 Jun 2020 22:52:30: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:52:30: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:52:30: #1 total tags in treatment: 18309919 INFO @ Mon, 29 Jun 2020 22:52:30: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:30: #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 22:52:31: #1 tags after filtering in treatment: 18309919 INFO @ Mon, 29 Jun 2020 22:52:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:31: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:31: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:31: 12000000 INFO @ Mon, 29 Jun 2020 22:52:32: #2 number of paired peaks: 35 WARNING @ Mon, 29 Jun 2020 22:52:32: Too few paired peaks (35) 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 22:52:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.10_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/SRX287849/SRX287849.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:36: 13000000 INFO @ Mon, 29 Jun 2020 22:52:40: 14000000 INFO @ Mon, 29 Jun 2020 22:52:45: 15000000 INFO @ Mon, 29 Jun 2020 22:52:50: 16000000 INFO @ Mon, 29 Jun 2020 22:52:54: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:52:59: 18000000 INFO @ Mon, 29 Jun 2020 22:53:01: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:53:01: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:53:01: #1 total tags in treatment: 18309919 INFO @ Mon, 29 Jun 2020 22:53:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:53:01: #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 22:53:01: #1 tags after filtering in treatment: 18309919 INFO @ Mon, 29 Jun 2020 22:53:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:53:01: #1 finished! INFO @ Mon, 29 Jun 2020 22:53:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:53:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:53:02: #2 number of paired peaks: 35 WARNING @ Mon, 29 Jun 2020 22:53:02: Too few paired peaks (35) 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 22:53:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.20_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/SRX287849/SRX287849.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287849/SRX287849.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。