Job ID = 6457812 SRX = SRX4798854 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:13:34 prefetch.2.10.7: 1) Downloading 'SRR7965215'... 2020-06-21T12:13:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:15:52 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:15:52 prefetch.2.10.7: 'SRR7965215' is valid 2020-06-21T12:15:52 prefetch.2.10.7: 1) 'SRR7965215' was downloaded successfully Read 13907077 spots for SRR7965215/SRR7965215.sra Written 13907077 spots for SRR7965215/SRR7965215.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: 00:03:07 13907077 reads; of these: 13907077 (100.00%) were unpaired; of these: 648114 (4.66%) aligned 0 times 11942711 (85.88%) aligned exactly 1 time 1316252 (9.46%) aligned >1 times 95.34% overall alignment rate Time searching: 00:03:07 Overall time: 00:03:07 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_sort_core] merging from 8 files... [bam_rmdupse_core] 1018974 / 13258963 = 0.0769 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 @ Sun, 21 Jun 2020 21:23:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.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 @ Sun, 21 Jun 2020 21:23:41: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:23:41: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:23:47: 1000000 INFO @ Sun, 21 Jun 2020 21:23:53: 2000000 INFO @ Sun, 21 Jun 2020 21:24:00: 3000000 INFO @ Sun, 21 Jun 2020 21:24:06: 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 @ Sun, 21 Jun 2020 21:24:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.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 @ Sun, 21 Jun 2020 21:24:11: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:24:11: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:24:12: 5000000 INFO @ Sun, 21 Jun 2020 21:24:18: 1000000 INFO @ Sun, 21 Jun 2020 21:24:19: 6000000 INFO @ Sun, 21 Jun 2020 21:24:25: 2000000 INFO @ Sun, 21 Jun 2020 21:24:26: 7000000 INFO @ Sun, 21 Jun 2020 21:24:32: 3000000 INFO @ Sun, 21 Jun 2020 21:24:33: 8000000 INFO @ Sun, 21 Jun 2020 21:24:39: 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 @ Sun, 21 Jun 2020 21:24:40: 9000000 INFO @ Sun, 21 Jun 2020 21:24:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.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 @ Sun, 21 Jun 2020 21:24:41: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:24:41: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:24:46: 5000000 INFO @ Sun, 21 Jun 2020 21:24:47: 10000000 INFO @ Sun, 21 Jun 2020 21:24:48: 1000000 INFO @ Sun, 21 Jun 2020 21:24:53: 6000000 INFO @ Sun, 21 Jun 2020 21:24:54: 11000000 INFO @ Sun, 21 Jun 2020 21:24:55: 2000000 INFO @ Sun, 21 Jun 2020 21:24:59: 7000000 INFO @ Sun, 21 Jun 2020 21:25:02: 12000000 INFO @ Sun, 21 Jun 2020 21:25:02: 3000000 INFO @ Sun, 21 Jun 2020 21:25:03: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:25:03: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:25:03: #1 total tags in treatment: 12239989 INFO @ Sun, 21 Jun 2020 21:25:03: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:25:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:25:04: #1 tags after filtering in treatment: 12239960 INFO @ Sun, 21 Jun 2020 21:25:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:25:04: #1 finished! INFO @ Sun, 21 Jun 2020 21:25:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:25:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:25:05: #2 number of paired peaks: 89 WARNING @ Sun, 21 Jun 2020 21:25:05: Too few paired peaks (89) 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 @ Sun, 21 Jun 2020 21:25:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.05_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/dm6/SRX4798854/SRX4798854.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:25:06: 8000000 INFO @ Sun, 21 Jun 2020 21:25:09: 4000000 INFO @ Sun, 21 Jun 2020 21:25:13: 9000000 INFO @ Sun, 21 Jun 2020 21:25:15: 5000000 INFO @ Sun, 21 Jun 2020 21:25:20: 10000000 INFO @ Sun, 21 Jun 2020 21:25:22: 6000000 INFO @ Sun, 21 Jun 2020 21:25:27: 11000000 INFO @ Sun, 21 Jun 2020 21:25:29: 7000000 INFO @ Sun, 21 Jun 2020 21:25:34: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:25:36: 8000000 INFO @ Sun, 21 Jun 2020 21:25:36: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:25:36: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:25:36: #1 total tags in treatment: 12239989 INFO @ Sun, 21 Jun 2020 21:25:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:25:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:25:36: #1 tags after filtering in treatment: 12239960 INFO @ Sun, 21 Jun 2020 21:25:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:25:36: #1 finished! INFO @ Sun, 21 Jun 2020 21:25:36: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:25:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:25:37: #2 number of paired peaks: 89 WARNING @ Sun, 21 Jun 2020 21:25:37: Too few paired peaks (89) 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 @ Sun, 21 Jun 2020 21:25:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.10_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/SRX4798854/SRX4798854.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:25:42: 9000000 INFO @ Sun, 21 Jun 2020 21:25:48: 10000000 INFO @ Sun, 21 Jun 2020 21:25:54: 11000000 INFO @ Sun, 21 Jun 2020 21:26:00: 12000000 INFO @ Sun, 21 Jun 2020 21:26:02: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 21:26:02: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 21:26:02: #1 total tags in treatment: 12239989 INFO @ Sun, 21 Jun 2020 21:26:02: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:26:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 21:26:02: #1 tags after filtering in treatment: 12239960 INFO @ Sun, 21 Jun 2020 21:26:02: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:26:02: #1 finished! INFO @ Sun, 21 Jun 2020 21:26:02: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:26:02: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:26:03: #2 number of paired peaks: 89 WARNING @ Sun, 21 Jun 2020 21:26:03: Too few paired peaks (89) 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 @ Sun, 21 Jun 2020 21:26:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.20_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/SRX4798854/SRX4798854.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX4798854/SRX4798854.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling