Job ID = 6508875 SRX = SRX495248 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T15:16:40 prefetch.2.10.7: 1) Downloading 'SRR1198753'... 2020-06-26T15:16:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:18:17 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:18:19 prefetch.2.10.7: 'SRR1198753' is valid 2020-06-26T15:18:19 prefetch.2.10.7: 1) 'SRR1198753' was downloaded successfully Read 15295295 spots for SRR1198753/SRR1198753.sra Written 15295295 spots for SRR1198753/SRR1198753.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: 00:03:27 15295295 reads; of these: 15295295 (100.00%) were unpaired; of these: 5680340 (37.14%) aligned 0 times 8103561 (52.98%) aligned exactly 1 time 1511394 (9.88%) aligned >1 times 62.86% overall alignment rate Time searching: 00:03:27 Overall time: 00:03:27 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_rmdupse_core] 1534186 / 9614955 = 0.1596 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 @ Sat, 27 Jun 2020 00:25:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.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 @ Sat, 27 Jun 2020 00:25:49: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:25:49: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:25:55: 1000000 INFO @ Sat, 27 Jun 2020 00:26:02: 2000000 INFO @ Sat, 27 Jun 2020 00:26:09: 3000000 INFO @ Sat, 27 Jun 2020 00:26:16: 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 @ Sat, 27 Jun 2020 00:26:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.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 @ Sat, 27 Jun 2020 00:26:19: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:26:19: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:26:23: 5000000 INFO @ Sat, 27 Jun 2020 00:26:26: 1000000 INFO @ Sat, 27 Jun 2020 00:26:30: 6000000 INFO @ Sat, 27 Jun 2020 00:26:34: 2000000 INFO @ Sat, 27 Jun 2020 00:26:38: 7000000 INFO @ Sat, 27 Jun 2020 00:26:41: 3000000 INFO @ Sat, 27 Jun 2020 00:26:46: 8000000 INFO @ Sat, 27 Jun 2020 00:26:47: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:26:47: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:26:47: #1 total tags in treatment: 8080769 INFO @ Sat, 27 Jun 2020 00:26:47: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:26:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) 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 @ Sat, 27 Jun 2020 00:26:47: #1 tags after filtering in treatment: 8080751 INFO @ Sat, 27 Jun 2020 00:26:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:26:47: #1 finished! INFO @ Sat, 27 Jun 2020 00:26:47: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:26:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:26:48: #2 number of paired peaks: 99 WARNING @ Sat, 27 Jun 2020 00:26:48: Too few paired peaks (99) 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 @ Sat, 27 Jun 2020 00:26:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 00:26:48: 4000000 INFO @ Sat, 27 Jun 2020 00:26:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.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 @ Sat, 27 Jun 2020 00:26:49: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:26:49: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:26:56: 5000000 INFO @ Sat, 27 Jun 2020 00:26:56: 1000000 INFO @ Sat, 27 Jun 2020 00:27:03: 6000000 INFO @ Sat, 27 Jun 2020 00:27:04: 2000000 INFO @ Sat, 27 Jun 2020 00:27:11: 3000000 INFO @ Sat, 27 Jun 2020 00:27:11: 7000000 INFO @ Sat, 27 Jun 2020 00:27:18: 4000000 INFO @ Sat, 27 Jun 2020 00:27:19: 8000000 INFO @ Sat, 27 Jun 2020 00:27:20: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:27:20: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:27:20: #1 total tags in treatment: 8080769 INFO @ Sat, 27 Jun 2020 00:27:20: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:27:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:27:20: #1 tags after filtering in treatment: 8080751 INFO @ Sat, 27 Jun 2020 00:27:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:27:20: #1 finished! INFO @ Sat, 27 Jun 2020 00:27:20: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:27:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:27:21: #2 number of paired peaks: 99 WARNING @ Sat, 27 Jun 2020 00:27:21: Too few paired peaks (99) 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 @ Sat, 27 Jun 2020 00:27:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.10_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/dm6/SRX495248/SRX495248.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 00:27:25: 5000000 INFO @ Sat, 27 Jun 2020 00:27:32: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 27 Jun 2020 00:27:40: 7000000 INFO @ Sat, 27 Jun 2020 00:27:47: 8000000 INFO @ Sat, 27 Jun 2020 00:27:47: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:27:47: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:27:47: #1 total tags in treatment: 8080769 INFO @ Sat, 27 Jun 2020 00:27:47: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:27:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:27:48: #1 tags after filtering in treatment: 8080751 INFO @ Sat, 27 Jun 2020 00:27:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:27:48: #1 finished! INFO @ Sat, 27 Jun 2020 00:27:48: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:27:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:27:48: #2 number of paired peaks: 99 WARNING @ Sat, 27 Jun 2020 00:27:48: Too few paired peaks (99) 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 @ Sat, 27 Jun 2020 00:27:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.20_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/dm6/SRX495248/SRX495248.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX495248/SRX495248.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。