Job ID = 6527573 SRX = SRX113310 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:07:06 prefetch.2.10.7: 1) Downloading 'SRR392918'... 2020-06-29T13:07:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:10:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:10:22 prefetch.2.10.7: 1) 'SRR392918' was downloaded successfully Read 24032472 spots for SRR392918/SRR392918.sra Written 24032472 spots for SRR392918/SRR392918.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: 00:09:14 24032472 reads; of these: 24032472 (100.00%) were unpaired; of these: 462239 (1.92%) aligned 0 times 15781468 (65.67%) aligned exactly 1 time 7788765 (32.41%) aligned >1 times 98.08% overall alignment rate Time searching: 00:09:14 Overall time: 00:09:14 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] 5361346 / 23570233 = 0.2275 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 22:31:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.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 22:31:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:31:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:31:41: 1000000 INFO @ Mon, 29 Jun 2020 22:31:46: 2000000 INFO @ Mon, 29 Jun 2020 22:31:51: 3000000 INFO @ Mon, 29 Jun 2020 22:31:56: 4000000 INFO @ Mon, 29 Jun 2020 22:32:01: 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 22:32:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.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 22:32:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:32:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:32:06: 6000000 INFO @ Mon, 29 Jun 2020 22:32:12: 7000000 INFO @ Mon, 29 Jun 2020 22:32:12: 1000000 INFO @ Mon, 29 Jun 2020 22:32:17: 8000000 INFO @ Mon, 29 Jun 2020 22:32:19: 2000000 INFO @ Mon, 29 Jun 2020 22:32:23: 9000000 INFO @ Mon, 29 Jun 2020 22:32:26: 3000000 INFO @ Mon, 29 Jun 2020 22:32:29: 10000000 INFO @ Mon, 29 Jun 2020 22:32:33: 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 22:32:35: 11000000 INFO @ Mon, 29 Jun 2020 22:32:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.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 22:32:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:32:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:32:39: 5000000 INFO @ Mon, 29 Jun 2020 22:32:40: 12000000 INFO @ Mon, 29 Jun 2020 22:32:41: 1000000 INFO @ Mon, 29 Jun 2020 22:32:46: 6000000 INFO @ Mon, 29 Jun 2020 22:32:46: 13000000 INFO @ Mon, 29 Jun 2020 22:32:47: 2000000 INFO @ Mon, 29 Jun 2020 22:32:52: 14000000 INFO @ Mon, 29 Jun 2020 22:32:52: 7000000 INFO @ Mon, 29 Jun 2020 22:32:53: 3000000 INFO @ Mon, 29 Jun 2020 22:32:58: 15000000 INFO @ Mon, 29 Jun 2020 22:32:59: 8000000 INFO @ Mon, 29 Jun 2020 22:32:59: 4000000 INFO @ Mon, 29 Jun 2020 22:33:04: 16000000 INFO @ Mon, 29 Jun 2020 22:33:05: 5000000 INFO @ Mon, 29 Jun 2020 22:33:05: 9000000 INFO @ Mon, 29 Jun 2020 22:33:10: 17000000 INFO @ Mon, 29 Jun 2020 22:33:11: 6000000 INFO @ Mon, 29 Jun 2020 22:33:12: 10000000 INFO @ Mon, 29 Jun 2020 22:33:16: 18000000 INFO @ Mon, 29 Jun 2020 22:33:17: 7000000 INFO @ Mon, 29 Jun 2020 22:33:17: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:33:17: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:33:17: #1 total tags in treatment: 18208887 INFO @ Mon, 29 Jun 2020 22:33:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:33:17: #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 22:33:17: #1 tags after filtering in treatment: 18208887 INFO @ Mon, 29 Jun 2020 22:33:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:33:17: #1 finished! INFO @ Mon, 29 Jun 2020 22:33:17: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:33:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:33:18: 11000000 INFO @ Mon, 29 Jun 2020 22:33:18: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 22:33:18: Too few paired peaks (42) 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 22:33:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.05_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/SRX113310/SRX113310.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:33:22: 8000000 INFO @ Mon, 29 Jun 2020 22:33:24: 12000000 INFO @ Mon, 29 Jun 2020 22:33:28: 9000000 INFO @ Mon, 29 Jun 2020 22:33:31: 13000000 INFO @ Mon, 29 Jun 2020 22:33:34: 10000000 INFO @ Mon, 29 Jun 2020 22:33:38: 14000000 INFO @ Mon, 29 Jun 2020 22:33:40: 11000000 INFO @ Mon, 29 Jun 2020 22:33:44: 15000000 INFO @ Mon, 29 Jun 2020 22:33:46: 12000000 INFO @ Mon, 29 Jun 2020 22:33:51: 16000000 INFO @ Mon, 29 Jun 2020 22:33:51: 13000000 INFO @ Mon, 29 Jun 2020 22:33:57: 14000000 INFO @ Mon, 29 Jun 2020 22:33:58: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:34:03: 15000000 INFO @ Mon, 29 Jun 2020 22:34:04: 18000000 INFO @ Mon, 29 Jun 2020 22:34:06: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:34:06: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:34:06: #1 total tags in treatment: 18208887 INFO @ Mon, 29 Jun 2020 22:34:06: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:34:06: #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 22:34:06: #1 tags after filtering in treatment: 18208887 INFO @ Mon, 29 Jun 2020 22:34:06: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:34:06: #1 finished! INFO @ Mon, 29 Jun 2020 22:34:06: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:34:06: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:34:07: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 22:34:07: Too few paired peaks (42) 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 22:34:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.10_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/SRX113310/SRX113310.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:34:09: 16000000 INFO @ Mon, 29 Jun 2020 22:34:14: 17000000 INFO @ Mon, 29 Jun 2020 22:34:20: 18000000 INFO @ Mon, 29 Jun 2020 22:34:21: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:34:21: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:34:21: #1 total tags in treatment: 18208887 INFO @ Mon, 29 Jun 2020 22:34:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:34:21: #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 22:34:21: #1 tags after filtering in treatment: 18208887 INFO @ Mon, 29 Jun 2020 22:34:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:34:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:34:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:34:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:34:22: #2 number of paired peaks: 42 WARNING @ Mon, 29 Jun 2020 22:34:22: Too few paired peaks (42) 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 22:34:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.20_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/SRX113310/SRX113310.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX113310/SRX113310.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。