Job ID = 6528115 SRX = SRX4669062 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:29:06 prefetch.2.10.7: 1) Downloading 'SRR7817587'... 2020-06-29T14:29:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:30:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:30:51 prefetch.2.10.7: 'SRR7817587' is valid 2020-06-29T14:30:51 prefetch.2.10.7: 1) 'SRR7817587' was downloaded successfully 2020-06-29T14:30:51 prefetch.2.10.7: 'SRR7817587' has 0 unresolved dependencies Read 16206203 spots for SRR7817587/SRR7817587.sra Written 16206203 spots for SRR7817587/SRR7817587.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: 00:04:46 16206203 reads; of these: 16206203 (100.00%) were unpaired; of these: 745728 (4.60%) aligned 0 times 12504044 (77.16%) aligned exactly 1 time 2956431 (18.24%) aligned >1 times 95.40% overall alignment rate Time searching: 00:04:46 Overall time: 00:04:46 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] 2199471 / 15460475 = 0.1423 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 23:45:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.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 23:45:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:06: 1000000 INFO @ Mon, 29 Jun 2020 23:45:12: 2000000 INFO @ Mon, 29 Jun 2020 23:45:19: 3000000 INFO @ Mon, 29 Jun 2020 23:45:25: 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 23:45:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.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 23:45:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:31: 5000000 INFO @ Mon, 29 Jun 2020 23:45:36: 1000000 INFO @ Mon, 29 Jun 2020 23:45:38: 6000000 INFO @ Mon, 29 Jun 2020 23:45:43: 2000000 INFO @ Mon, 29 Jun 2020 23:45:44: 7000000 INFO @ Mon, 29 Jun 2020 23:45:49: 3000000 INFO @ Mon, 29 Jun 2020 23:45:51: 8000000 INFO @ Mon, 29 Jun 2020 23:45:55: 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 23:45:57: 9000000 INFO @ Mon, 29 Jun 2020 23:46:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.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 23:46:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:46:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:46:02: 5000000 INFO @ Mon, 29 Jun 2020 23:46:05: 10000000 INFO @ Mon, 29 Jun 2020 23:46:08: 1000000 INFO @ Mon, 29 Jun 2020 23:46:08: 6000000 INFO @ Mon, 29 Jun 2020 23:46:13: 11000000 INFO @ Mon, 29 Jun 2020 23:46:15: 7000000 INFO @ Mon, 29 Jun 2020 23:46:15: 2000000 INFO @ Mon, 29 Jun 2020 23:46:20: 12000000 INFO @ Mon, 29 Jun 2020 23:46:21: 8000000 INFO @ Mon, 29 Jun 2020 23:46:23: 3000000 INFO @ Mon, 29 Jun 2020 23:46:28: 9000000 INFO @ Mon, 29 Jun 2020 23:46:28: 13000000 INFO @ Mon, 29 Jun 2020 23:46:30: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:46:30: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:46:30: #1 total tags in treatment: 13261004 INFO @ Mon, 29 Jun 2020 23:46:30: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:30: #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 23:46:30: #1 tags after filtering in treatment: 13261004 INFO @ Mon, 29 Jun 2020 23:46:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:30: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:31: 4000000 INFO @ Mon, 29 Jun 2020 23:46:31: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 23:46:31: Too few paired peaks (87) 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 23:46:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.05_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/SRX4669062/SRX4669062.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:46:34: 10000000 INFO @ Mon, 29 Jun 2020 23:46:37: 5000000 INFO @ Mon, 29 Jun 2020 23:46:40: 11000000 INFO @ Mon, 29 Jun 2020 23:46:44: 6000000 INFO @ Mon, 29 Jun 2020 23:46:48: 12000000 INFO @ Mon, 29 Jun 2020 23:46:51: 7000000 INFO @ Mon, 29 Jun 2020 23:46:55: 13000000 INFO @ Mon, 29 Jun 2020 23:46:57: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:46:57: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:46:57: #1 total tags in treatment: 13261004 INFO @ Mon, 29 Jun 2020 23:46:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:46:57: #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 23:46:57: #1 tags after filtering in treatment: 13261004 INFO @ Mon, 29 Jun 2020 23:46:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:46:57: #1 finished! INFO @ Mon, 29 Jun 2020 23:46:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:46:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:46:57: 8000000 INFO @ Mon, 29 Jun 2020 23:46:58: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 23:46:58: Too few paired peaks (87) 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 23:46:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.10_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/dm3/SRX4669062/SRX4669062.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:47:04: 9000000 INFO @ Mon, 29 Jun 2020 23:47:10: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:47:17: 11000000 INFO @ Mon, 29 Jun 2020 23:47:23: 12000000 INFO @ Mon, 29 Jun 2020 23:47:30: 13000000 INFO @ Mon, 29 Jun 2020 23:47:31: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:47:31: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:47:31: #1 total tags in treatment: 13261004 INFO @ Mon, 29 Jun 2020 23:47:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:47:31: #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 23:47:32: #1 tags after filtering in treatment: 13261004 INFO @ Mon, 29 Jun 2020 23:47:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:47:32: #1 finished! INFO @ Mon, 29 Jun 2020 23:47:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:47:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:47:33: #2 number of paired peaks: 87 WARNING @ Mon, 29 Jun 2020 23:47:33: Too few paired peaks (87) 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 23:47:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.20_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/SRX4669062/SRX4669062.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4669062/SRX4669062.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。