Job ID = 6527907 SRX = SRX3167253 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:50:48 prefetch.2.10.7: 1) Downloading 'SRR6014256'... 2020-06-29T13:50:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:58:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:58:17 prefetch.2.10.7: 1) 'SRR6014256' was downloaded successfully Read 51704556 spots for SRR6014256/SRR6014256.sra Written 51704556 spots for SRR6014256/SRR6014256.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: 00:19:06 51704556 reads; of these: 51704556 (100.00%) were unpaired; of these: 3044983 (5.89%) aligned 0 times 32667670 (63.18%) aligned exactly 1 time 15991903 (30.93%) aligned >1 times 94.11% overall alignment rate Time searching: 00:19:06 Overall time: 00:19:06 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 20 files... [bam_rmdupse_core] 10174935 / 48659573 = 0.2091 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 23:45:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.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 23:45:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:45:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:45:44: 1000000 INFO @ Mon, 29 Jun 2020 23:45:51: 2000000 INFO @ Mon, 29 Jun 2020 23:45:57: 3000000 INFO @ Mon, 29 Jun 2020 23:46:03: 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 23:46:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.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 23:46:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:46:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:46:09: 5000000 INFO @ Mon, 29 Jun 2020 23:46:15: 1000000 INFO @ Mon, 29 Jun 2020 23:46:15: 6000000 INFO @ Mon, 29 Jun 2020 23:46:21: 2000000 INFO @ Mon, 29 Jun 2020 23:46:22: 7000000 INFO @ Mon, 29 Jun 2020 23:46:28: 3000000 INFO @ Mon, 29 Jun 2020 23:46:29: 8000000 INFO @ Mon, 29 Jun 2020 23:46:35: 4000000 INFO @ Mon, 29 Jun 2020 23:46:35: 9000000 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 23:46:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.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 23:46:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:46:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:46:41: 5000000 INFO @ Mon, 29 Jun 2020 23:46:42: 10000000 INFO @ Mon, 29 Jun 2020 23:46:45: 1000000 INFO @ Mon, 29 Jun 2020 23:46:48: 6000000 INFO @ Mon, 29 Jun 2020 23:46:49: 11000000 INFO @ Mon, 29 Jun 2020 23:46:52: 2000000 INFO @ Mon, 29 Jun 2020 23:46:55: 7000000 INFO @ Mon, 29 Jun 2020 23:46:55: 12000000 INFO @ Mon, 29 Jun 2020 23:46:58: 3000000 INFO @ Mon, 29 Jun 2020 23:47:01: 8000000 INFO @ Mon, 29 Jun 2020 23:47:02: 13000000 INFO @ Mon, 29 Jun 2020 23:47:05: 4000000 INFO @ Mon, 29 Jun 2020 23:47:08: 9000000 INFO @ Mon, 29 Jun 2020 23:47:09: 14000000 INFO @ Mon, 29 Jun 2020 23:47:12: 5000000 INFO @ Mon, 29 Jun 2020 23:47:15: 10000000 INFO @ Mon, 29 Jun 2020 23:47:15: 15000000 INFO @ Mon, 29 Jun 2020 23:47:18: 6000000 INFO @ Mon, 29 Jun 2020 23:47:21: 11000000 INFO @ Mon, 29 Jun 2020 23:47:22: 16000000 INFO @ Mon, 29 Jun 2020 23:47:25: 7000000 INFO @ Mon, 29 Jun 2020 23:47:28: 12000000 INFO @ Mon, 29 Jun 2020 23:47:29: 17000000 INFO @ Mon, 29 Jun 2020 23:47:32: 8000000 INFO @ Mon, 29 Jun 2020 23:47:35: 13000000 INFO @ Mon, 29 Jun 2020 23:47:35: 18000000 INFO @ Mon, 29 Jun 2020 23:47:38: 9000000 INFO @ Mon, 29 Jun 2020 23:47:42: 14000000 INFO @ Mon, 29 Jun 2020 23:47:42: 19000000 INFO @ Mon, 29 Jun 2020 23:47:45: 10000000 INFO @ Mon, 29 Jun 2020 23:47:48: 15000000 INFO @ Mon, 29 Jun 2020 23:47:49: 20000000 INFO @ Mon, 29 Jun 2020 23:47:52: 11000000 INFO @ Mon, 29 Jun 2020 23:47:55: 16000000 INFO @ Mon, 29 Jun 2020 23:47:56: 21000000 INFO @ Mon, 29 Jun 2020 23:47:59: 12000000 INFO @ Mon, 29 Jun 2020 23:48:02: 17000000 INFO @ Mon, 29 Jun 2020 23:48:03: 22000000 INFO @ Mon, 29 Jun 2020 23:48:06: 13000000 INFO @ Mon, 29 Jun 2020 23:48:09: 18000000 INFO @ Mon, 29 Jun 2020 23:48:10: 23000000 INFO @ Mon, 29 Jun 2020 23:48:13: 14000000 INFO @ Mon, 29 Jun 2020 23:48:16: 19000000 INFO @ Mon, 29 Jun 2020 23:48:17: 24000000 INFO @ Mon, 29 Jun 2020 23:48:20: 15000000 INFO @ Mon, 29 Jun 2020 23:48:23: 20000000 INFO @ Mon, 29 Jun 2020 23:48:24: 25000000 INFO @ Mon, 29 Jun 2020 23:48:27: 16000000 INFO @ Mon, 29 Jun 2020 23:48:30: 21000000 INFO @ Mon, 29 Jun 2020 23:48:30: 26000000 INFO @ Mon, 29 Jun 2020 23:48:33: 17000000 INFO @ Mon, 29 Jun 2020 23:48:37: 22000000 INFO @ Mon, 29 Jun 2020 23:48:37: 27000000 INFO @ Mon, 29 Jun 2020 23:48:40: 18000000 INFO @ Mon, 29 Jun 2020 23:48:44: 23000000 INFO @ Mon, 29 Jun 2020 23:48:44: 28000000 INFO @ Mon, 29 Jun 2020 23:48:47: 19000000 INFO @ Mon, 29 Jun 2020 23:48:51: 24000000 INFO @ Mon, 29 Jun 2020 23:48:51: 29000000 INFO @ Mon, 29 Jun 2020 23:48:54: 20000000 INFO @ Mon, 29 Jun 2020 23:48:58: 25000000 INFO @ Mon, 29 Jun 2020 23:48:59: 30000000 INFO @ Mon, 29 Jun 2020 23:49:01: 21000000 INFO @ Mon, 29 Jun 2020 23:49:05: 26000000 INFO @ Mon, 29 Jun 2020 23:49:06: 31000000 INFO @ Mon, 29 Jun 2020 23:49:08: 22000000 INFO @ Mon, 29 Jun 2020 23:49:12: 27000000 INFO @ Mon, 29 Jun 2020 23:49:13: 32000000 INFO @ Mon, 29 Jun 2020 23:49:15: 23000000 INFO @ Mon, 29 Jun 2020 23:49:19: 28000000 INFO @ Mon, 29 Jun 2020 23:49:20: 33000000 INFO @ Mon, 29 Jun 2020 23:49:22: 24000000 INFO @ Mon, 29 Jun 2020 23:49:26: 29000000 INFO @ Mon, 29 Jun 2020 23:49:27: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:49:29: 25000000 INFO @ Mon, 29 Jun 2020 23:49:33: 30000000 INFO @ Mon, 29 Jun 2020 23:49:34: 35000000 INFO @ Mon, 29 Jun 2020 23:49:36: 26000000 INFO @ Mon, 29 Jun 2020 23:49:40: 31000000 INFO @ Mon, 29 Jun 2020 23:49:41: 36000000 INFO @ Mon, 29 Jun 2020 23:49:43: 27000000 INFO @ Mon, 29 Jun 2020 23:49:47: 32000000 INFO @ Mon, 29 Jun 2020 23:49:48: 37000000 INFO @ Mon, 29 Jun 2020 23:49:50: 28000000 INFO @ Mon, 29 Jun 2020 23:49:54: 33000000 INFO @ Mon, 29 Jun 2020 23:49:56: 38000000 INFO @ Mon, 29 Jun 2020 23:49:57: 29000000 INFO @ Mon, 29 Jun 2020 23:49:59: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:49:59: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:49:59: #1 total tags in treatment: 38484638 INFO @ Mon, 29 Jun 2020 23:49:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:49:59: #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 23:50:00: #1 tags after filtering in treatment: 38484638 INFO @ Mon, 29 Jun 2020 23:50:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:50:00: #1 finished! INFO @ Mon, 29 Jun 2020 23:50:00: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:50:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:50:01: 34000000 INFO @ Mon, 29 Jun 2020 23:50:02: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:50:02: Too few paired peaks (73) 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 23:50:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.05_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/SRX3167253/SRX3167253.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:50:04: 30000000 INFO @ Mon, 29 Jun 2020 23:50:09: 35000000 INFO @ Mon, 29 Jun 2020 23:50:11: 31000000 INFO @ Mon, 29 Jun 2020 23:50:16: 36000000 INFO @ Mon, 29 Jun 2020 23:50:18: 32000000 INFO @ Mon, 29 Jun 2020 23:50:23: 37000000 INFO @ Mon, 29 Jun 2020 23:50:25: 33000000 INFO @ Mon, 29 Jun 2020 23:50:30: 38000000 INFO @ Mon, 29 Jun 2020 23:50:32: 34000000 INFO @ Mon, 29 Jun 2020 23:50:33: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:50:33: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:50:33: #1 total tags in treatment: 38484638 INFO @ Mon, 29 Jun 2020 23:50:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:50:33: #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 23:50:34: #1 tags after filtering in treatment: 38484638 INFO @ Mon, 29 Jun 2020 23:50:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:50:34: #1 finished! INFO @ Mon, 29 Jun 2020 23:50:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:50:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:50:37: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:50:37: Too few paired peaks (73) 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 23:50:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.10_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/SRX3167253/SRX3167253.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:50:39: 35000000 INFO @ Mon, 29 Jun 2020 23:50:45: 36000000 INFO @ Mon, 29 Jun 2020 23:50:51: 37000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:50:57: 38000000 INFO @ Mon, 29 Jun 2020 23:51:00: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:51:00: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:51:00: #1 total tags in treatment: 38484638 INFO @ Mon, 29 Jun 2020 23:51:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:51:00: #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 23:51:01: #1 tags after filtering in treatment: 38484638 INFO @ Mon, 29 Jun 2020 23:51:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:51:01: #1 finished! INFO @ Mon, 29 Jun 2020 23:51:01: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:51:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:51:03: #2 number of paired peaks: 73 WARNING @ Mon, 29 Jun 2020 23:51:03: Too few paired peaks (73) 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 23:51:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.20_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/SRX3167253/SRX3167253.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167253/SRX3167253.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling