Job ID = 6527549 SRX = SRX1085379 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:55:12 prefetch.2.10.7: 1) Downloading 'SRR2090178'... 2020-06-29T12:55:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:59:25 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:59:25 prefetch.2.10.7: 1) 'SRR2090178' was downloaded successfully Read 35038509 spots for SRR2090178/SRR2090178.sra Written 35038509 spots for SRR2090178/SRR2090178.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: 00:14:00 35038509 reads; of these: 35038509 (100.00%) were unpaired; of these: 795111 (2.27%) aligned 0 times 28531949 (81.43%) aligned exactly 1 time 5711449 (16.30%) aligned >1 times 97.73% overall alignment rate Time searching: 00:14:00 Overall time: 00:14:00 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] 4176083 / 34243398 = 0.1220 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 22:41:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.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 22:41:54: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:41:54: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:42:01: 1000000 INFO @ Mon, 29 Jun 2020 22:42:08: 2000000 INFO @ Mon, 29 Jun 2020 22:42:16: 3000000 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 22:42:24: 4000000 INFO @ Mon, 29 Jun 2020 22:42:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.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 22:42:24: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:42:24: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:42:31: 5000000 INFO @ Mon, 29 Jun 2020 22:42:32: 1000000 INFO @ Mon, 29 Jun 2020 22:42:39: 6000000 INFO @ Mon, 29 Jun 2020 22:42:40: 2000000 INFO @ Mon, 29 Jun 2020 22:42:47: 7000000 INFO @ Mon, 29 Jun 2020 22:42:48: 3000000 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 22:42:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.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 22:42:54: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:42:54: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:42:55: 8000000 INFO @ Mon, 29 Jun 2020 22:42:55: 4000000 INFO @ Mon, 29 Jun 2020 22:43:01: 1000000 INFO @ Mon, 29 Jun 2020 22:43:03: 9000000 INFO @ Mon, 29 Jun 2020 22:43:04: 5000000 INFO @ Mon, 29 Jun 2020 22:43:09: 2000000 INFO @ Mon, 29 Jun 2020 22:43:11: 10000000 INFO @ Mon, 29 Jun 2020 22:43:12: 6000000 INFO @ Mon, 29 Jun 2020 22:43:16: 3000000 INFO @ Mon, 29 Jun 2020 22:43:19: 11000000 INFO @ Mon, 29 Jun 2020 22:43:20: 7000000 INFO @ Mon, 29 Jun 2020 22:43:23: 4000000 INFO @ Mon, 29 Jun 2020 22:43:27: 12000000 INFO @ Mon, 29 Jun 2020 22:43:28: 8000000 INFO @ Mon, 29 Jun 2020 22:43:31: 5000000 INFO @ Mon, 29 Jun 2020 22:43:36: 13000000 INFO @ Mon, 29 Jun 2020 22:43:36: 9000000 INFO @ Mon, 29 Jun 2020 22:43:38: 6000000 INFO @ Mon, 29 Jun 2020 22:43:44: 14000000 INFO @ Mon, 29 Jun 2020 22:43:44: 10000000 INFO @ Mon, 29 Jun 2020 22:43:45: 7000000 INFO @ Mon, 29 Jun 2020 22:43:52: 15000000 INFO @ Mon, 29 Jun 2020 22:43:52: 8000000 INFO @ Mon, 29 Jun 2020 22:43:52: 11000000 INFO @ Mon, 29 Jun 2020 22:44:00: 16000000 INFO @ Mon, 29 Jun 2020 22:44:00: 9000000 INFO @ Mon, 29 Jun 2020 22:44:01: 12000000 INFO @ Mon, 29 Jun 2020 22:44:07: 10000000 INFO @ Mon, 29 Jun 2020 22:44:07: 17000000 INFO @ Mon, 29 Jun 2020 22:44:09: 13000000 INFO @ Mon, 29 Jun 2020 22:44:14: 11000000 INFO @ Mon, 29 Jun 2020 22:44:15: 18000000 INFO @ Mon, 29 Jun 2020 22:44:17: 14000000 INFO @ Mon, 29 Jun 2020 22:44:21: 12000000 INFO @ Mon, 29 Jun 2020 22:44:23: 19000000 INFO @ Mon, 29 Jun 2020 22:44:25: 15000000 INFO @ Mon, 29 Jun 2020 22:44:28: 13000000 INFO @ Mon, 29 Jun 2020 22:44:32: 20000000 INFO @ Mon, 29 Jun 2020 22:44:33: 16000000 INFO @ Mon, 29 Jun 2020 22:44:36: 14000000 INFO @ Mon, 29 Jun 2020 22:44:40: 21000000 INFO @ Mon, 29 Jun 2020 22:44:41: 17000000 INFO @ Mon, 29 Jun 2020 22:44:43: 15000000 INFO @ Mon, 29 Jun 2020 22:44:47: 22000000 INFO @ Mon, 29 Jun 2020 22:44:49: 18000000 INFO @ Mon, 29 Jun 2020 22:44:50: 16000000 INFO @ Mon, 29 Jun 2020 22:44:55: 23000000 INFO @ Mon, 29 Jun 2020 22:44:57: 17000000 INFO @ Mon, 29 Jun 2020 22:44:57: 19000000 INFO @ Mon, 29 Jun 2020 22:45:03: 24000000 INFO @ Mon, 29 Jun 2020 22:45:04: 18000000 INFO @ Mon, 29 Jun 2020 22:45:05: 20000000 INFO @ Mon, 29 Jun 2020 22:45:11: 25000000 INFO @ Mon, 29 Jun 2020 22:45:12: 19000000 INFO @ Mon, 29 Jun 2020 22:45:14: 21000000 INFO @ Mon, 29 Jun 2020 22:45:19: 20000000 INFO @ Mon, 29 Jun 2020 22:45:19: 26000000 INFO @ Mon, 29 Jun 2020 22:45:22: 22000000 INFO @ Mon, 29 Jun 2020 22:45:26: 21000000 INFO @ Mon, 29 Jun 2020 22:45:27: 27000000 INFO @ Mon, 29 Jun 2020 22:45:30: 23000000 INFO @ Mon, 29 Jun 2020 22:45:34: 22000000 INFO @ Mon, 29 Jun 2020 22:45:35: 28000000 INFO @ Mon, 29 Jun 2020 22:45:38: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:45:41: 23000000 INFO @ Mon, 29 Jun 2020 22:45:43: 29000000 INFO @ Mon, 29 Jun 2020 22:45:46: 25000000 INFO @ Mon, 29 Jun 2020 22:45:48: 24000000 INFO @ Mon, 29 Jun 2020 22:45:51: 30000000 INFO @ Mon, 29 Jun 2020 22:45:51: #1 tag size is determined as 80 bps INFO @ Mon, 29 Jun 2020 22:45:51: #1 tag size = 80 INFO @ Mon, 29 Jun 2020 22:45:51: #1 total tags in treatment: 30067315 INFO @ Mon, 29 Jun 2020 22:45:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:45:51: #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 22:45:52: #1 tags after filtering in treatment: 30067315 INFO @ Mon, 29 Jun 2020 22:45:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:45:52: #1 finished! INFO @ Mon, 29 Jun 2020 22:45:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:45:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:45:54: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 22:45:54: Too few paired peaks (15) 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 22:45:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.05_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/SRX1085379/SRX1085379.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:45:54: 26000000 INFO @ Mon, 29 Jun 2020 22:45:56: 25000000 INFO @ Mon, 29 Jun 2020 22:46:02: 27000000 INFO @ Mon, 29 Jun 2020 22:46:03: 26000000 INFO @ Mon, 29 Jun 2020 22:46:09: 28000000 INFO @ Mon, 29 Jun 2020 22:46:10: 27000000 INFO @ Mon, 29 Jun 2020 22:46:17: 28000000 INFO @ Mon, 29 Jun 2020 22:46:17: 29000000 INFO @ Mon, 29 Jun 2020 22:46:24: 29000000 INFO @ Mon, 29 Jun 2020 22:46:25: 30000000 INFO @ Mon, 29 Jun 2020 22:46:25: #1 tag size is determined as 80 bps INFO @ Mon, 29 Jun 2020 22:46:25: #1 tag size = 80 INFO @ Mon, 29 Jun 2020 22:46:25: #1 total tags in treatment: 30067315 INFO @ Mon, 29 Jun 2020 22:46:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:46:25: #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 22:46:26: #1 tags after filtering in treatment: 30067315 INFO @ Mon, 29 Jun 2020 22:46:26: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:46:26: #1 finished! INFO @ Mon, 29 Jun 2020 22:46:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:46:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:46:28: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 22:46:28: Too few paired peaks (15) 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 22:46:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.10_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/SRX1085379/SRX1085379.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:46:31: 30000000 INFO @ Mon, 29 Jun 2020 22:46:31: #1 tag size is determined as 80 bps INFO @ Mon, 29 Jun 2020 22:46:31: #1 tag size = 80 INFO @ Mon, 29 Jun 2020 22:46:31: #1 total tags in treatment: 30067315 INFO @ Mon, 29 Jun 2020 22:46:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:46:31: #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 22:46:32: #1 tags after filtering in treatment: 30067315 INFO @ Mon, 29 Jun 2020 22:46:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:46:32: #1 finished! INFO @ Mon, 29 Jun 2020 22:46:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:46:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:46:34: #2 number of paired peaks: 15 WARNING @ Mon, 29 Jun 2020 22:46:34: Too few paired peaks (15) 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 22:46:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.20_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/SRX1085379/SRX1085379.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1085379/SRX1085379.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。