Job ID = 6527469 SRX = SRX017473 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:36:22 prefetch.2.10.7: 1) Downloading 'SRR037530'... 2020-06-29T12:36:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:37:57 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:37:57 prefetch.2.10.7: 'SRR037530' is valid 2020-06-29T12:37:57 prefetch.2.10.7: 1) 'SRR037530' was downloaded successfully Read 15540073 spots for SRR037530/SRR037530.sra Written 15540073 spots for SRR037530/SRR037530.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: 00:04:51 15540073 reads; of these: 15540073 (100.00%) were unpaired; of these: 480743 (3.09%) aligned 0 times 11007415 (70.83%) aligned exactly 1 time 4051915 (26.07%) aligned >1 times 96.91% overall alignment rate Time searching: 00:04:51 Overall time: 00:04:51 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] 1772050 / 15059330 = 0.1177 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 21:49:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.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 21:49:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:49:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:49:48: 1000000 INFO @ Mon, 29 Jun 2020 21:49:53: 2000000 INFO @ Mon, 29 Jun 2020 21:49:58: 3000000 INFO @ Mon, 29 Jun 2020 21:50:03: 4000000 INFO @ Mon, 29 Jun 2020 21:50:08: 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 21:50:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.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 21:50:12: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:50:12: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:50:14: 6000000 INFO @ Mon, 29 Jun 2020 21:50:18: 1000000 INFO @ Mon, 29 Jun 2020 21:50:19: 7000000 INFO @ Mon, 29 Jun 2020 21:50:23: 2000000 INFO @ Mon, 29 Jun 2020 21:50:24: 8000000 INFO @ Mon, 29 Jun 2020 21:50:28: 3000000 INFO @ Mon, 29 Jun 2020 21:50:30: 9000000 INFO @ Mon, 29 Jun 2020 21:50:33: 4000000 INFO @ Mon, 29 Jun 2020 21:50:35: 10000000 INFO @ Mon, 29 Jun 2020 21:50:38: 5000000 INFO @ Mon, 29 Jun 2020 21:50:40: 11000000 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 21:50:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.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 21:50:42: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:50:42: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:50:43: 6000000 INFO @ Mon, 29 Jun 2020 21:50:45: 12000000 INFO @ Mon, 29 Jun 2020 21:50:48: 1000000 INFO @ Mon, 29 Jun 2020 21:50:48: 7000000 INFO @ Mon, 29 Jun 2020 21:50:50: 13000000 INFO @ Mon, 29 Jun 2020 21:50:52: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:50:52: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:50:52: #1 total tags in treatment: 13287280 INFO @ Mon, 29 Jun 2020 21:50:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:50:52: #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 21:50:52: #1 tags after filtering in treatment: 13287280 INFO @ Mon, 29 Jun 2020 21:50:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:50:52: #1 finished! INFO @ Mon, 29 Jun 2020 21:50:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:50:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:50:53: 2000000 INFO @ Mon, 29 Jun 2020 21:50:53: #2 number of paired peaks: 68 WARNING @ Mon, 29 Jun 2020 21:50:53: Too few paired peaks (68) 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 21:50:53: Process for pairing-model is terminated! INFO @ Mon, 29 Jun 2020 21:50:53: 8000000 cut: /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.05_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/SRX017473/SRX017473.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:50:58: 9000000 INFO @ Mon, 29 Jun 2020 21:50:58: 3000000 INFO @ Mon, 29 Jun 2020 21:51:03: 10000000 INFO @ Mon, 29 Jun 2020 21:51:04: 4000000 INFO @ Mon, 29 Jun 2020 21:51:08: 11000000 INFO @ Mon, 29 Jun 2020 21:51:09: 5000000 INFO @ Mon, 29 Jun 2020 21:51:13: 12000000 INFO @ Mon, 29 Jun 2020 21:51:14: 6000000 INFO @ Mon, 29 Jun 2020 21:51:18: 13000000 INFO @ Mon, 29 Jun 2020 21:51:19: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:51:19: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:51:19: #1 total tags in treatment: 13287280 INFO @ Mon, 29 Jun 2020 21:51:19: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:51:19: #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 21:51:19: #1 tags after filtering in treatment: 13287280 INFO @ Mon, 29 Jun 2020 21:51:19: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:51:19: #1 finished! INFO @ Mon, 29 Jun 2020 21:51:19: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:51:19: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:51:20: 7000000 INFO @ Mon, 29 Jun 2020 21:51:20: #2 number of paired peaks: 68 WARNING @ Mon, 29 Jun 2020 21:51:20: Too few paired peaks (68) 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 21:51:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.10_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/SRX017473/SRX017473.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:51:25: 8000000 INFO @ Mon, 29 Jun 2020 21:51:30: 9000000 INFO @ Mon, 29 Jun 2020 21:51:36: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:51:41: 11000000 INFO @ Mon, 29 Jun 2020 21:51:46: 12000000 INFO @ Mon, 29 Jun 2020 21:51:51: 13000000 INFO @ Mon, 29 Jun 2020 21:51:53: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:51:53: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:51:53: #1 total tags in treatment: 13287280 INFO @ Mon, 29 Jun 2020 21:51:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:51:53: #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 21:51:53: #1 tags after filtering in treatment: 13287280 INFO @ Mon, 29 Jun 2020 21:51:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:51:53: #1 finished! INFO @ Mon, 29 Jun 2020 21:51:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:51:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:51:54: #2 number of paired peaks: 68 WARNING @ Mon, 29 Jun 2020 21:51:54: Too few paired peaks (68) 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 21:51:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.20_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/SRX017473/SRX017473.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX017473/SRX017473.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。