Job ID = 6527923 SRX = SRX3279756 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:09:05 prefetch.2.10.7: 1) Downloading 'SRR6168906'... 2020-06-29T14:09:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:14:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:14:08 prefetch.2.10.7: 1) 'SRR6168906' was downloaded successfully 2020-06-29T14:14:08 prefetch.2.10.7: 'SRR6168906' has 0 unresolved dependencies Read 33978547 spots for SRR6168906/SRR6168906.sra Written 33978547 spots for SRR6168906/SRR6168906.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: 00:13:28 33978547 reads; of these: 33978547 (100.00%) were unpaired; of these: 1192123 (3.51%) aligned 0 times 27643677 (81.36%) aligned exactly 1 time 5142747 (15.14%) aligned >1 times 96.49% overall alignment rate Time searching: 00:13:28 Overall time: 00:13:28 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 16 files... [bam_rmdupse_core] 2486491 / 32786424 = 0.0758 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 23:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.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 23:57:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:57:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:57:22: 1000000 INFO @ Mon, 29 Jun 2020 23:57:29: 2000000 INFO @ Mon, 29 Jun 2020 23:57:35: 3000000 INFO @ Mon, 29 Jun 2020 23:57:42: 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 23:57:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.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 23:57:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:57:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:57:49: 5000000 INFO @ Mon, 29 Jun 2020 23:57:54: 1000000 INFO @ Mon, 29 Jun 2020 23:57:57: 6000000 INFO @ Mon, 29 Jun 2020 23:58:02: 2000000 INFO @ Mon, 29 Jun 2020 23:58:04: 7000000 INFO @ Mon, 29 Jun 2020 23:58:10: 3000000 INFO @ Mon, 29 Jun 2020 23:58:12: 8000000 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 23:58:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.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 23:58:16: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:58:16: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:58:19: 4000000 INFO @ Mon, 29 Jun 2020 23:58:20: 9000000 INFO @ Mon, 29 Jun 2020 23:58:24: 1000000 INFO @ Mon, 29 Jun 2020 23:58:27: 5000000 INFO @ Mon, 29 Jun 2020 23:58:28: 10000000 INFO @ Mon, 29 Jun 2020 23:58:32: 2000000 INFO @ Mon, 29 Jun 2020 23:58:35: 6000000 INFO @ Mon, 29 Jun 2020 23:58:36: 11000000 INFO @ Mon, 29 Jun 2020 23:58:39: 3000000 INFO @ Mon, 29 Jun 2020 23:58:43: 7000000 INFO @ Mon, 29 Jun 2020 23:58:44: 12000000 INFO @ Mon, 29 Jun 2020 23:58:47: 4000000 INFO @ Mon, 29 Jun 2020 23:58:51: 8000000 INFO @ Mon, 29 Jun 2020 23:58:52: 13000000 INFO @ Mon, 29 Jun 2020 23:58:55: 5000000 INFO @ Mon, 29 Jun 2020 23:58:59: 9000000 INFO @ Mon, 29 Jun 2020 23:58:59: 14000000 INFO @ Mon, 29 Jun 2020 23:59:02: 6000000 INFO @ Mon, 29 Jun 2020 23:59:07: 15000000 INFO @ Mon, 29 Jun 2020 23:59:07: 10000000 INFO @ Mon, 29 Jun 2020 23:59:10: 7000000 INFO @ Mon, 29 Jun 2020 23:59:15: 16000000 INFO @ Mon, 29 Jun 2020 23:59:15: 11000000 INFO @ Mon, 29 Jun 2020 23:59:17: 8000000 INFO @ Mon, 29 Jun 2020 23:59:22: 17000000 INFO @ Mon, 29 Jun 2020 23:59:23: 12000000 INFO @ Mon, 29 Jun 2020 23:59:25: 9000000 INFO @ Mon, 29 Jun 2020 23:59:30: 18000000 INFO @ Mon, 29 Jun 2020 23:59:31: 13000000 INFO @ Mon, 29 Jun 2020 23:59:33: 10000000 INFO @ Mon, 29 Jun 2020 23:59:38: 19000000 INFO @ Mon, 29 Jun 2020 23:59:39: 14000000 INFO @ Mon, 29 Jun 2020 23:59:40: 11000000 INFO @ Mon, 29 Jun 2020 23:59:46: 20000000 INFO @ Mon, 29 Jun 2020 23:59:48: 15000000 INFO @ Mon, 29 Jun 2020 23:59:48: 12000000 INFO @ Mon, 29 Jun 2020 23:59:54: 21000000 INFO @ Mon, 29 Jun 2020 23:59:56: 16000000 INFO @ Mon, 29 Jun 2020 23:59:56: 13000000 INFO @ Tue, 30 Jun 2020 00:00:02: 22000000 INFO @ Tue, 30 Jun 2020 00:00:04: 14000000 INFO @ Tue, 30 Jun 2020 00:00:04: 17000000 INFO @ Tue, 30 Jun 2020 00:00:10: 23000000 INFO @ Tue, 30 Jun 2020 00:00:11: 15000000 INFO @ Tue, 30 Jun 2020 00:00:12: 18000000 INFO @ Tue, 30 Jun 2020 00:00:18: 24000000 INFO @ Tue, 30 Jun 2020 00:00:19: 16000000 INFO @ Tue, 30 Jun 2020 00:00:21: 19000000 INFO @ Tue, 30 Jun 2020 00:00:26: 25000000 INFO @ Tue, 30 Jun 2020 00:00:27: 17000000 INFO @ Tue, 30 Jun 2020 00:00:29: 20000000 INFO @ Tue, 30 Jun 2020 00:00:34: 26000000 INFO @ Tue, 30 Jun 2020 00:00:35: 18000000 INFO @ Tue, 30 Jun 2020 00:00:37: 21000000 INFO @ Tue, 30 Jun 2020 00:00:42: 27000000 INFO @ Tue, 30 Jun 2020 00:00:42: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:00:46: 22000000 INFO @ Tue, 30 Jun 2020 00:00:50: 28000000 INFO @ Tue, 30 Jun 2020 00:00:50: 20000000 INFO @ Tue, 30 Jun 2020 00:00:54: 23000000 INFO @ Tue, 30 Jun 2020 00:00:57: 29000000 INFO @ Tue, 30 Jun 2020 00:00:58: 21000000 INFO @ Tue, 30 Jun 2020 00:01:02: 24000000 INFO @ Tue, 30 Jun 2020 00:01:05: 30000000 INFO @ Tue, 30 Jun 2020 00:01:06: 22000000 INFO @ Tue, 30 Jun 2020 00:01:08: #1 tag size is determined as 79 bps INFO @ Tue, 30 Jun 2020 00:01:08: #1 tag size = 79 INFO @ Tue, 30 Jun 2020 00:01:08: #1 total tags in treatment: 30299933 INFO @ Tue, 30 Jun 2020 00:01:08: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:01:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:01:08: #1 tags after filtering in treatment: 30299933 INFO @ Tue, 30 Jun 2020 00:01:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:01:08: #1 finished! INFO @ Tue, 30 Jun 2020 00:01:08: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:01:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:01:10: 25000000 INFO @ Tue, 30 Jun 2020 00:01:10: #2 number of paired peaks: 23 WARNING @ Tue, 30 Jun 2020 00:01:10: Too few paired peaks (23) 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 @ Tue, 30 Jun 2020 00:01:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.05_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/SRX3279756/SRX3279756.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:01:13: 23000000 INFO @ Tue, 30 Jun 2020 00:01:18: 26000000 INFO @ Tue, 30 Jun 2020 00:01:20: 24000000 INFO @ Tue, 30 Jun 2020 00:01:27: 27000000 INFO @ Tue, 30 Jun 2020 00:01:28: 25000000 INFO @ Tue, 30 Jun 2020 00:01:35: 28000000 INFO @ Tue, 30 Jun 2020 00:01:35: 26000000 INFO @ Tue, 30 Jun 2020 00:01:42: 27000000 INFO @ Tue, 30 Jun 2020 00:01:43: 29000000 INFO @ Tue, 30 Jun 2020 00:01:50: 28000000 INFO @ Tue, 30 Jun 2020 00:01:51: 30000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:01:53: #1 tag size is determined as 79 bps INFO @ Tue, 30 Jun 2020 00:01:53: #1 tag size = 79 INFO @ Tue, 30 Jun 2020 00:01:53: #1 total tags in treatment: 30299933 INFO @ Tue, 30 Jun 2020 00:01:53: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:01:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:01:54: #1 tags after filtering in treatment: 30299933 INFO @ Tue, 30 Jun 2020 00:01:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:01:54: #1 finished! INFO @ Tue, 30 Jun 2020 00:01:54: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:01:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:01:56: #2 number of paired peaks: 23 WARNING @ Tue, 30 Jun 2020 00:01:56: Too few paired peaks (23) 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 @ Tue, 30 Jun 2020 00:01:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.10_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/SRX3279756/SRX3279756.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:01:57: 29000000 INFO @ Tue, 30 Jun 2020 00:02:04: 30000000 INFO @ Tue, 30 Jun 2020 00:02:06: #1 tag size is determined as 79 bps INFO @ Tue, 30 Jun 2020 00:02:06: #1 tag size = 79 INFO @ Tue, 30 Jun 2020 00:02:06: #1 total tags in treatment: 30299933 INFO @ Tue, 30 Jun 2020 00:02:06: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:02:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:02:06: #1 tags after filtering in treatment: 30299933 INFO @ Tue, 30 Jun 2020 00:02:06: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:02:06: #1 finished! INFO @ Tue, 30 Jun 2020 00:02:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:02:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:02:08: #2 number of paired peaks: 23 WARNING @ Tue, 30 Jun 2020 00:02:08: Too few paired peaks (23) 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 @ Tue, 30 Jun 2020 00:02:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.20_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/SRX3279756/SRX3279756.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3279756/SRX3279756.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling