Job ID = 6527709 SRX = SRX2325651 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:23:33 prefetch.2.10.7: 1) Downloading 'SRR4896339'... 2020-06-29T13:23:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:27:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:27:32 prefetch.2.10.7: 1) 'SRR4896339' was downloaded successfully 2020-06-29T13:27:32 prefetch.2.10.7: 'SRR4896339' has 0 unresolved dependencies Read 35658487 spots for SRR4896339/SRR4896339.sra Written 35658487 spots for SRR4896339/SRR4896339.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: 00:18:08 35658487 reads; of these: 35658487 (100.00%) were unpaired; of these: 3880717 (10.88%) aligned 0 times 24073825 (67.51%) aligned exactly 1 time 7703945 (21.60%) aligned >1 times 89.12% overall alignment rate Time searching: 00:18:08 Overall time: 00:18:08 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] 5264026 / 31777770 = 0.1657 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 23:12:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.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 23:12:57: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:12:57: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:13:04: 1000000 INFO @ Mon, 29 Jun 2020 23:13:11: 2000000 INFO @ Mon, 29 Jun 2020 23:13:17: 3000000 INFO @ Mon, 29 Jun 2020 23:13:24: 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 23:13:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.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 23:13:27: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:13:27: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:13:31: 5000000 INFO @ Mon, 29 Jun 2020 23:13:35: 1000000 INFO @ Mon, 29 Jun 2020 23:13:38: 6000000 INFO @ Mon, 29 Jun 2020 23:13:42: 2000000 INFO @ Mon, 29 Jun 2020 23:13:45: 7000000 INFO @ Mon, 29 Jun 2020 23:13:49: 3000000 INFO @ Mon, 29 Jun 2020 23:13:52: 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 23:13:56: 4000000 INFO @ Mon, 29 Jun 2020 23:13:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.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 23:13:57: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:13:57: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:14:00: 9000000 INFO @ Mon, 29 Jun 2020 23:14:03: 5000000 INFO @ Mon, 29 Jun 2020 23:14:05: 1000000 INFO @ Mon, 29 Jun 2020 23:14:07: 10000000 INFO @ Mon, 29 Jun 2020 23:14:11: 6000000 INFO @ Mon, 29 Jun 2020 23:14:12: 2000000 INFO @ Mon, 29 Jun 2020 23:14:14: 11000000 INFO @ Mon, 29 Jun 2020 23:14:18: 7000000 INFO @ Mon, 29 Jun 2020 23:14:20: 3000000 INFO @ Mon, 29 Jun 2020 23:14:21: 12000000 INFO @ Mon, 29 Jun 2020 23:14:25: 8000000 INFO @ Mon, 29 Jun 2020 23:14:27: 4000000 INFO @ Mon, 29 Jun 2020 23:14:29: 13000000 INFO @ Mon, 29 Jun 2020 23:14:33: 9000000 INFO @ Mon, 29 Jun 2020 23:14:35: 5000000 INFO @ Mon, 29 Jun 2020 23:14:36: 14000000 INFO @ Mon, 29 Jun 2020 23:14:40: 10000000 INFO @ Mon, 29 Jun 2020 23:14:42: 6000000 INFO @ Mon, 29 Jun 2020 23:14:44: 15000000 INFO @ Mon, 29 Jun 2020 23:14:48: 11000000 INFO @ Mon, 29 Jun 2020 23:14:50: 7000000 INFO @ Mon, 29 Jun 2020 23:14:51: 16000000 INFO @ Mon, 29 Jun 2020 23:14:55: 12000000 INFO @ Mon, 29 Jun 2020 23:14:57: 8000000 INFO @ Mon, 29 Jun 2020 23:14:58: 17000000 INFO @ Mon, 29 Jun 2020 23:15:03: 13000000 INFO @ Mon, 29 Jun 2020 23:15:05: 9000000 INFO @ Mon, 29 Jun 2020 23:15:06: 18000000 INFO @ Mon, 29 Jun 2020 23:15:10: 14000000 INFO @ Mon, 29 Jun 2020 23:15:12: 10000000 INFO @ Mon, 29 Jun 2020 23:15:13: 19000000 INFO @ Mon, 29 Jun 2020 23:15:18: 15000000 INFO @ Mon, 29 Jun 2020 23:15:20: 11000000 INFO @ Mon, 29 Jun 2020 23:15:21: 20000000 INFO @ Mon, 29 Jun 2020 23:15:26: 16000000 INFO @ Mon, 29 Jun 2020 23:15:28: 12000000 INFO @ Mon, 29 Jun 2020 23:15:28: 21000000 INFO @ Mon, 29 Jun 2020 23:15:33: 17000000 INFO @ Mon, 29 Jun 2020 23:15:35: 13000000 INFO @ Mon, 29 Jun 2020 23:15:36: 22000000 INFO @ Mon, 29 Jun 2020 23:15:41: 18000000 INFO @ Mon, 29 Jun 2020 23:15:43: 14000000 INFO @ Mon, 29 Jun 2020 23:15:44: 23000000 INFO @ Mon, 29 Jun 2020 23:15:48: 19000000 INFO @ Mon, 29 Jun 2020 23:15:50: 15000000 INFO @ Mon, 29 Jun 2020 23:15:52: 24000000 INFO @ Mon, 29 Jun 2020 23:15:55: 20000000 INFO @ Mon, 29 Jun 2020 23:15:58: 16000000 INFO @ Mon, 29 Jun 2020 23:16:00: 25000000 INFO @ Mon, 29 Jun 2020 23:16:03: 21000000 INFO @ Mon, 29 Jun 2020 23:16:05: 17000000 INFO @ Mon, 29 Jun 2020 23:16:07: 26000000 INFO @ Mon, 29 Jun 2020 23:16:10: 22000000 INFO @ Mon, 29 Jun 2020 23:16:11: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:16:11: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:16:11: #1 total tags in treatment: 26513744 INFO @ Mon, 29 Jun 2020 23:16:11: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:16:11: #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 23:16:12: #1 tags after filtering in treatment: 26513744 INFO @ Mon, 29 Jun 2020 23:16:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:16:12: #1 finished! INFO @ Mon, 29 Jun 2020 23:16:12: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:16:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:16:12: 18000000 INFO @ Mon, 29 Jun 2020 23:16:14: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 23:16:14: Too few paired peaks (25) 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 23:16:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.05_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/SRX2325651/SRX2325651.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:16:17: 23000000 INFO @ Mon, 29 Jun 2020 23:16:19: 19000000 INFO @ Mon, 29 Jun 2020 23:16:25: 24000000 INFO @ Mon, 29 Jun 2020 23:16:26: 20000000 INFO @ Mon, 29 Jun 2020 23:16:32: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:16:33: 21000000 INFO @ Mon, 29 Jun 2020 23:16:39: 26000000 INFO @ Mon, 29 Jun 2020 23:16:40: 22000000 INFO @ Mon, 29 Jun 2020 23:16:43: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:16:43: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:16:43: #1 total tags in treatment: 26513744 INFO @ Mon, 29 Jun 2020 23:16:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:16:43: #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 23:16:43: #1 tags after filtering in treatment: 26513744 INFO @ Mon, 29 Jun 2020 23:16:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:16:43: #1 finished! INFO @ Mon, 29 Jun 2020 23:16:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:16:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:16:45: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 23:16:45: Too few paired peaks (25) 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 23:16:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.10_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/SRX2325651/SRX2325651.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:16:46: 23000000 INFO @ Mon, 29 Jun 2020 23:16:53: 24000000 INFO @ Mon, 29 Jun 2020 23:17:00: 25000000 INFO @ Mon, 29 Jun 2020 23:17:06: 26000000 INFO @ Mon, 29 Jun 2020 23:17:10: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:17:10: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:17:10: #1 total tags in treatment: 26513744 INFO @ Mon, 29 Jun 2020 23:17:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:17:10: #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 23:17:10: #1 tags after filtering in treatment: 26513744 INFO @ Mon, 29 Jun 2020 23:17:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:17:10: #1 finished! INFO @ Mon, 29 Jun 2020 23:17:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:17:10: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:17:12: #2 number of paired peaks: 25 WARNING @ Mon, 29 Jun 2020 23:17:12: Too few paired peaks (25) 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 23:17:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.20_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/SRX2325651/SRX2325651.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325651/SRX2325651.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。