Job ID = 6527877 SRX = SRX288011 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:00:51 prefetch.2.10.7: 1) Downloading 'SRR870200'... 2020-06-29T14:00:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:05:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:05:01 prefetch.2.10.7: 1) 'SRR870200' was downloaded successfully Read 20453859 spots for SRR870200/SRR870200.sra Written 20453859 spots for SRR870200/SRR870200.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: 00:06:37 20453859 reads; of these: 20453859 (100.00%) were unpaired; of these: 1348972 (6.60%) aligned 0 times 14770395 (72.21%) aligned exactly 1 time 4334492 (21.19%) aligned >1 times 93.40% overall alignment rate Time searching: 00:06:38 Overall time: 00:06:38 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 8 files... [bam_rmdupse_core] 2415297 / 19104887 = 0.1264 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 23:25:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.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 23:25:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:25:06: 1000000 INFO @ Mon, 29 Jun 2020 23:25:13: 2000000 INFO @ Mon, 29 Jun 2020 23:25:19: 3000000 INFO @ Mon, 29 Jun 2020 23:25:25: 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 @ Mon, 29 Jun 2020 23:25:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.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 23:25:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:25:31: 5000000 INFO @ Mon, 29 Jun 2020 23:25:37: 1000000 INFO @ Mon, 29 Jun 2020 23:25:38: 6000000 INFO @ Mon, 29 Jun 2020 23:25:43: 2000000 INFO @ Mon, 29 Jun 2020 23:25:44: 7000000 INFO @ Mon, 29 Jun 2020 23:25:50: 3000000 INFO @ Mon, 29 Jun 2020 23:25:51: 8000000 INFO @ Mon, 29 Jun 2020 23:25:56: 4000000 INFO @ Mon, 29 Jun 2020 23:25:58: 9000000 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 23:26:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.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 23:26:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:26:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:26:03: 5000000 INFO @ Mon, 29 Jun 2020 23:26:04: 10000000 INFO @ Mon, 29 Jun 2020 23:26:07: 1000000 INFO @ Mon, 29 Jun 2020 23:26:10: 6000000 INFO @ Mon, 29 Jun 2020 23:26:11: 11000000 INFO @ Mon, 29 Jun 2020 23:26:14: 2000000 INFO @ Mon, 29 Jun 2020 23:26:16: 7000000 INFO @ Mon, 29 Jun 2020 23:26:18: 12000000 INFO @ Mon, 29 Jun 2020 23:26:21: 3000000 INFO @ Mon, 29 Jun 2020 23:26:23: 8000000 INFO @ Mon, 29 Jun 2020 23:26:25: 13000000 INFO @ Mon, 29 Jun 2020 23:26:28: 4000000 INFO @ Mon, 29 Jun 2020 23:26:30: 9000000 INFO @ Mon, 29 Jun 2020 23:26:31: 14000000 INFO @ Mon, 29 Jun 2020 23:26:34: 5000000 INFO @ Mon, 29 Jun 2020 23:26:37: 10000000 INFO @ Mon, 29 Jun 2020 23:26:38: 15000000 INFO @ Mon, 29 Jun 2020 23:26:41: 6000000 INFO @ Mon, 29 Jun 2020 23:26:43: 11000000 INFO @ Mon, 29 Jun 2020 23:26:45: 16000000 INFO @ Mon, 29 Jun 2020 23:26:48: 7000000 INFO @ Mon, 29 Jun 2020 23:26:50: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:26:50: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:26:50: #1 total tags in treatment: 16689590 INFO @ Mon, 29 Jun 2020 23:26:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:26:50: #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 23:26:50: 12000000 INFO @ Mon, 29 Jun 2020 23:26:50: #1 tags after filtering in treatment: 16689590 INFO @ Mon, 29 Jun 2020 23:26:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:26:50: #1 finished! INFO @ Mon, 29 Jun 2020 23:26:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:26:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:26:51: #2 number of paired peaks: 63 WARNING @ Mon, 29 Jun 2020 23:26:51: Too few paired peaks (63) 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 23:26:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.05_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/SRX288011/SRX288011.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:26:54: 8000000 INFO @ Mon, 29 Jun 2020 23:26:56: 13000000 INFO @ Mon, 29 Jun 2020 23:27:01: 9000000 INFO @ Mon, 29 Jun 2020 23:27:03: 14000000 INFO @ Mon, 29 Jun 2020 23:27:07: 10000000 INFO @ Mon, 29 Jun 2020 23:27:09: 15000000 INFO @ Mon, 29 Jun 2020 23:27:14: 11000000 INFO @ Mon, 29 Jun 2020 23:27:16: 16000000 INFO @ Mon, 29 Jun 2020 23:27:20: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:27:20: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:27:20: #1 total tags in treatment: 16689590 INFO @ Mon, 29 Jun 2020 23:27:20: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:27:20: #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 23:27:20: 12000000 INFO @ Mon, 29 Jun 2020 23:27:21: #1 tags after filtering in treatment: 16689590 INFO @ Mon, 29 Jun 2020 23:27:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:27:21: #1 finished! INFO @ Mon, 29 Jun 2020 23:27:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:27:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:27:22: #2 number of paired peaks: 63 WARNING @ Mon, 29 Jun 2020 23:27:22: Too few paired peaks (63) 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 23:27:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.10_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/SRX288011/SRX288011.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:27:26: 13000000 INFO @ Mon, 29 Jun 2020 23:27:32: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:27:38: 15000000 INFO @ Mon, 29 Jun 2020 23:27:45: 16000000 INFO @ Mon, 29 Jun 2020 23:27:49: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:27:49: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:27:49: #1 total tags in treatment: 16689590 INFO @ Mon, 29 Jun 2020 23:27:49: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:27:49: #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 23:27:50: #1 tags after filtering in treatment: 16689590 INFO @ Mon, 29 Jun 2020 23:27:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:27:50: #1 finished! INFO @ Mon, 29 Jun 2020 23:27:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:27:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:27:51: #2 number of paired peaks: 63 WARNING @ Mon, 29 Jun 2020 23:27:51: Too few paired peaks (63) 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 23:27:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.20_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/SRX288011/SRX288011.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX288011/SRX288011.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。