Job ID = 6528312 SRX = SRX5343129 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:03:36 prefetch.2.10.7: 1) Downloading 'SRR8540829'... 2020-06-29T15:03:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:06:28 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:06:28 prefetch.2.10.7: 1) 'SRR8540829' was downloaded successfully 2020-06-29T15:06:28 prefetch.2.10.7: 'SRR8540829' has 0 unresolved dependencies Read 31676150 spots for SRR8540829/SRR8540829.sra Written 31676150 spots for SRR8540829/SRR8540829.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: 00:14:55 31676150 reads; of these: 31676150 (100.00%) were unpaired; of these: 1107752 (3.50%) aligned 0 times 20926266 (66.06%) aligned exactly 1 time 9642132 (30.44%) aligned >1 times 96.50% overall alignment rate Time searching: 00:14:55 Overall time: 00:14:55 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] 3884482 / 30568398 = 0.1271 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 @ Tue, 30 Jun 2020 00:43:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.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 @ Tue, 30 Jun 2020 00:43:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:43:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:43:49: 1000000 INFO @ Tue, 30 Jun 2020 00:43:56: 2000000 INFO @ Tue, 30 Jun 2020 00:44:03: 3000000 INFO @ Tue, 30 Jun 2020 00:44:10: 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 @ Tue, 30 Jun 2020 00:44:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.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 @ Tue, 30 Jun 2020 00:44:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:44:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:44:17: 5000000 INFO @ Tue, 30 Jun 2020 00:44:21: 1000000 INFO @ Tue, 30 Jun 2020 00:44:26: 6000000 INFO @ Tue, 30 Jun 2020 00:44:31: 2000000 INFO @ Tue, 30 Jun 2020 00:44:34: 7000000 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 @ Tue, 30 Jun 2020 00:44:40: 3000000 INFO @ Tue, 30 Jun 2020 00:44:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.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 @ Tue, 30 Jun 2020 00:44:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:44:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:44:42: 8000000 INFO @ Tue, 30 Jun 2020 00:44:50: 4000000 INFO @ Tue, 30 Jun 2020 00:44:51: 1000000 INFO @ Tue, 30 Jun 2020 00:44:51: 9000000 INFO @ Tue, 30 Jun 2020 00:44:59: 5000000 INFO @ Tue, 30 Jun 2020 00:44:59: 2000000 INFO @ Tue, 30 Jun 2020 00:45:00: 10000000 INFO @ Tue, 30 Jun 2020 00:45:08: 6000000 INFO @ Tue, 30 Jun 2020 00:45:08: 3000000 INFO @ Tue, 30 Jun 2020 00:45:08: 11000000 INFO @ Tue, 30 Jun 2020 00:45:17: 7000000 INFO @ Tue, 30 Jun 2020 00:45:17: 4000000 INFO @ Tue, 30 Jun 2020 00:45:17: 12000000 INFO @ Tue, 30 Jun 2020 00:45:25: 13000000 INFO @ Tue, 30 Jun 2020 00:45:25: 5000000 INFO @ Tue, 30 Jun 2020 00:45:26: 8000000 INFO @ Tue, 30 Jun 2020 00:45:34: 14000000 INFO @ Tue, 30 Jun 2020 00:45:34: 6000000 INFO @ Tue, 30 Jun 2020 00:45:35: 9000000 INFO @ Tue, 30 Jun 2020 00:45:42: 15000000 INFO @ Tue, 30 Jun 2020 00:45:42: 7000000 INFO @ Tue, 30 Jun 2020 00:45:44: 10000000 INFO @ Tue, 30 Jun 2020 00:45:51: 16000000 INFO @ Tue, 30 Jun 2020 00:45:51: 8000000 INFO @ Tue, 30 Jun 2020 00:45:53: 11000000 INFO @ Tue, 30 Jun 2020 00:45:59: 17000000 INFO @ Tue, 30 Jun 2020 00:45:59: 9000000 INFO @ Tue, 30 Jun 2020 00:46:02: 12000000 INFO @ Tue, 30 Jun 2020 00:46:07: 18000000 INFO @ Tue, 30 Jun 2020 00:46:08: 10000000 INFO @ Tue, 30 Jun 2020 00:46:11: 13000000 INFO @ Tue, 30 Jun 2020 00:46:16: 19000000 INFO @ Tue, 30 Jun 2020 00:46:16: 11000000 INFO @ Tue, 30 Jun 2020 00:46:20: 14000000 INFO @ Tue, 30 Jun 2020 00:46:24: 20000000 INFO @ Tue, 30 Jun 2020 00:46:25: 12000000 INFO @ Tue, 30 Jun 2020 00:46:29: 15000000 INFO @ Tue, 30 Jun 2020 00:46:33: 21000000 INFO @ Tue, 30 Jun 2020 00:46:33: 13000000 INFO @ Tue, 30 Jun 2020 00:46:38: 16000000 INFO @ Tue, 30 Jun 2020 00:46:41: 22000000 INFO @ Tue, 30 Jun 2020 00:46:42: 14000000 INFO @ Tue, 30 Jun 2020 00:46:46: 17000000 INFO @ Tue, 30 Jun 2020 00:46:50: 23000000 INFO @ Tue, 30 Jun 2020 00:46:50: 15000000 INFO @ Tue, 30 Jun 2020 00:46:55: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:46:58: 24000000 INFO @ Tue, 30 Jun 2020 00:46:59: 16000000 INFO @ Tue, 30 Jun 2020 00:47:04: 19000000 INFO @ Tue, 30 Jun 2020 00:47:07: 25000000 INFO @ Tue, 30 Jun 2020 00:47:07: 17000000 INFO @ Tue, 30 Jun 2020 00:47:13: 20000000 INFO @ Tue, 30 Jun 2020 00:47:15: 26000000 INFO @ Tue, 30 Jun 2020 00:47:15: 18000000 INFO @ Tue, 30 Jun 2020 00:47:21: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:47:21: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:47:21: #1 total tags in treatment: 26683916 INFO @ Tue, 30 Jun 2020 00:47:21: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:47:21: #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 00:47:22: #1 tags after filtering in treatment: 26683916 INFO @ Tue, 30 Jun 2020 00:47:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:47:22: #1 finished! INFO @ Tue, 30 Jun 2020 00:47:22: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:47:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:47:23: 21000000 INFO @ Tue, 30 Jun 2020 00:47:23: #2 number of paired peaks: 65 WARNING @ Tue, 30 Jun 2020 00:47:23: Too few paired peaks (65) 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 00:47:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.05_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/SRX5343129/SRX5343129.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:47:24: 19000000 INFO @ Tue, 30 Jun 2020 00:47:31: 22000000 INFO @ Tue, 30 Jun 2020 00:47:32: 20000000 INFO @ Tue, 30 Jun 2020 00:47:40: 23000000 INFO @ Tue, 30 Jun 2020 00:47:41: 21000000 INFO @ Tue, 30 Jun 2020 00:47:49: 22000000 INFO @ Tue, 30 Jun 2020 00:47:49: 24000000 INFO @ Tue, 30 Jun 2020 00:47:57: 23000000 INFO @ Tue, 30 Jun 2020 00:47:58: 25000000 INFO @ Tue, 30 Jun 2020 00:48:06: 24000000 INFO @ Tue, 30 Jun 2020 00:48:07: 26000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:48:13: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:48:13: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:48:13: #1 total tags in treatment: 26683916 INFO @ Tue, 30 Jun 2020 00:48:13: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:48:13: #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 00:48:13: #1 tags after filtering in treatment: 26683916 INFO @ Tue, 30 Jun 2020 00:48:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:48:13: #1 finished! INFO @ Tue, 30 Jun 2020 00:48:13: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:48:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:48:14: 25000000 INFO @ Tue, 30 Jun 2020 00:48:15: #2 number of paired peaks: 65 WARNING @ Tue, 30 Jun 2020 00:48:15: Too few paired peaks (65) 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 00:48:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.10_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/SRX5343129/SRX5343129.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:48:21: 26000000 INFO @ Tue, 30 Jun 2020 00:48:26: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:48:26: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:48:26: #1 total tags in treatment: 26683916 INFO @ Tue, 30 Jun 2020 00:48:26: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:48:26: #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 00:48:26: #1 tags after filtering in treatment: 26683916 INFO @ Tue, 30 Jun 2020 00:48:26: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:48:26: #1 finished! INFO @ Tue, 30 Jun 2020 00:48:26: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:48:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:48:28: #2 number of paired peaks: 65 WARNING @ Tue, 30 Jun 2020 00:48:28: Too few paired peaks (65) 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 00:48:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.20_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/SRX5343129/SRX5343129.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343129/SRX5343129.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling