Job ID = 6527868 SRX = SRX287935 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:04:51 prefetch.2.10.7: 1) Downloading 'SRR870124'... 2020-06-29T14:04:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:08:20 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:08:20 prefetch.2.10.7: 1) 'SRR870124' was downloaded successfully Read 17391587 spots for SRR870124/SRR870124.sra Written 17391587 spots for SRR870124/SRR870124.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: 00:06:48 17391587 reads; of these: 17391587 (100.00%) were unpaired; of these: 1025255 (5.90%) aligned 0 times 11106895 (63.86%) aligned exactly 1 time 5259437 (30.24%) aligned >1 times 94.10% overall alignment rate Time searching: 00:06:48 Overall time: 00:06:48 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] 1696496 / 16366332 = 0.1037 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 23:25:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.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 23:25:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:25:31: 1000000 INFO @ Mon, 29 Jun 2020 23:25:37: 2000000 INFO @ Mon, 29 Jun 2020 23:25:43: 3000000 INFO @ Mon, 29 Jun 2020 23:25:49: 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 23:25:54: 5000000 INFO @ Mon, 29 Jun 2020 23:25:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.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 23:25:56: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:25:56: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:26:01: 6000000 INFO @ Mon, 29 Jun 2020 23:26:02: 1000000 INFO @ Mon, 29 Jun 2020 23:26:07: 7000000 INFO @ Mon, 29 Jun 2020 23:26:09: 2000000 INFO @ Mon, 29 Jun 2020 23:26:13: 8000000 INFO @ Mon, 29 Jun 2020 23:26:15: 3000000 INFO @ Mon, 29 Jun 2020 23:26:19: 9000000 INFO @ Mon, 29 Jun 2020 23:26:22: 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 23:26:26: 10000000 INFO @ Mon, 29 Jun 2020 23:26:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.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 23:26:26: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:26:26: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:26:28: 5000000 INFO @ Mon, 29 Jun 2020 23:26:32: 11000000 INFO @ Mon, 29 Jun 2020 23:26:32: 1000000 INFO @ Mon, 29 Jun 2020 23:26:35: 6000000 INFO @ Mon, 29 Jun 2020 23:26:38: 12000000 INFO @ Mon, 29 Jun 2020 23:26:39: 2000000 INFO @ Mon, 29 Jun 2020 23:26:41: 7000000 INFO @ Mon, 29 Jun 2020 23:26:45: 13000000 INFO @ Mon, 29 Jun 2020 23:26:45: 3000000 INFO @ Mon, 29 Jun 2020 23:26:48: 8000000 INFO @ Mon, 29 Jun 2020 23:26:51: 14000000 INFO @ Mon, 29 Jun 2020 23:26:51: 4000000 INFO @ Mon, 29 Jun 2020 23:26:54: 9000000 INFO @ Mon, 29 Jun 2020 23:26:55: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:26:55: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:26:55: #1 total tags in treatment: 14669836 INFO @ Mon, 29 Jun 2020 23:26:55: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:26:55: #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 23:26:56: #1 tags after filtering in treatment: 14669836 INFO @ Mon, 29 Jun 2020 23:26:56: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:26:56: #1 finished! INFO @ Mon, 29 Jun 2020 23:26:56: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:26:56: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:26:57: #2 number of paired peaks: 76 WARNING @ Mon, 29 Jun 2020 23:26:57: Too few paired peaks (76) 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 23:26:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.05_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/SRX287935/SRX287935.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:26:58: 5000000 INFO @ Mon, 29 Jun 2020 23:27:00: 10000000 INFO @ Mon, 29 Jun 2020 23:27:04: 6000000 INFO @ Mon, 29 Jun 2020 23:27:07: 11000000 INFO @ Mon, 29 Jun 2020 23:27:10: 7000000 INFO @ Mon, 29 Jun 2020 23:27:13: 12000000 INFO @ Mon, 29 Jun 2020 23:27:17: 8000000 INFO @ Mon, 29 Jun 2020 23:27:19: 13000000 INFO @ Mon, 29 Jun 2020 23:27:23: 9000000 INFO @ Mon, 29 Jun 2020 23:27:25: 14000000 INFO @ Mon, 29 Jun 2020 23:27:29: 10000000 INFO @ Mon, 29 Jun 2020 23:27:30: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:27:30: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:27:30: #1 total tags in treatment: 14669836 INFO @ Mon, 29 Jun 2020 23:27:30: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:27:30: #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 23:27:30: #1 tags after filtering in treatment: 14669836 INFO @ Mon, 29 Jun 2020 23:27:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:27:30: #1 finished! INFO @ Mon, 29 Jun 2020 23:27:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:27:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:27:31: #2 number of paired peaks: 76 WARNING @ Mon, 29 Jun 2020 23:27:31: Too few paired peaks (76) 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 23:27:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.10_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/SRX287935/SRX287935.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:27:35: 11000000 INFO @ Mon, 29 Jun 2020 23:27:41: 12000000 INFO @ Mon, 29 Jun 2020 23:27:47: 13000000 INFO @ Mon, 29 Jun 2020 23:27:52: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:27:56: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:27:56: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:27:56: #1 total tags in treatment: 14669836 INFO @ Mon, 29 Jun 2020 23:27:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:27:56: #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 23:27:57: #1 tags after filtering in treatment: 14669836 INFO @ Mon, 29 Jun 2020 23:27:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:27:57: #1 finished! INFO @ Mon, 29 Jun 2020 23:27:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:27:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:27:58: #2 number of paired peaks: 76 WARNING @ Mon, 29 Jun 2020 23:27:58: Too few paired peaks (76) 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 23:27:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.20_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/SRX287935/SRX287935.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287935/SRX287935.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。