Job ID = 6527640 SRX = SRX1837293 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:16:08 prefetch.2.10.7: 1) Downloading 'SRR3657649'... 2020-06-29T13:16:08 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:18:51 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:18:51 prefetch.2.10.7: 1) 'SRR3657649' was downloaded successfully Read 38349384 spots for SRR3657649/SRR3657649.sra Written 38349384 spots for SRR3657649/SRR3657649.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: 00:12:02 38349384 reads; of these: 38349384 (100.00%) were unpaired; of these: 1714526 (4.47%) aligned 0 times 29934063 (78.06%) aligned exactly 1 time 6700795 (17.47%) aligned >1 times 95.53% overall alignment rate Time searching: 00:12:02 Overall time: 00:12:02 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] 9565130 / 36634858 = 0.2611 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 22:52:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.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 22:52:48: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:52:48: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:52:54: 1000000 INFO @ Mon, 29 Jun 2020 22:53:00: 2000000 INFO @ Mon, 29 Jun 2020 22:53:06: 3000000 INFO @ Mon, 29 Jun 2020 22:53:12: 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 22:53:17: 5000000 INFO @ Mon, 29 Jun 2020 22:53:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.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 22:53:18: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:53:18: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:53:23: 6000000 INFO @ Mon, 29 Jun 2020 22:53:24: 1000000 INFO @ Mon, 29 Jun 2020 22:53:29: 7000000 INFO @ Mon, 29 Jun 2020 22:53:30: 2000000 INFO @ Mon, 29 Jun 2020 22:53:35: 8000000 INFO @ Mon, 29 Jun 2020 22:53:36: 3000000 INFO @ Mon, 29 Jun 2020 22:53:40: 9000000 INFO @ Mon, 29 Jun 2020 22:53:41: 4000000 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 22:53:46: 10000000 INFO @ Mon, 29 Jun 2020 22:53:47: 5000000 INFO @ Mon, 29 Jun 2020 22:53:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.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 22:53:48: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:53:48: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:53:52: 11000000 INFO @ Mon, 29 Jun 2020 22:53:54: 6000000 INFO @ Mon, 29 Jun 2020 22:53:54: 1000000 INFO @ Mon, 29 Jun 2020 22:53:58: 12000000 INFO @ Mon, 29 Jun 2020 22:54:00: 7000000 INFO @ Mon, 29 Jun 2020 22:54:01: 2000000 INFO @ Mon, 29 Jun 2020 22:54:05: 13000000 INFO @ Mon, 29 Jun 2020 22:54:06: 8000000 INFO @ Mon, 29 Jun 2020 22:54:07: 3000000 INFO @ Mon, 29 Jun 2020 22:54:11: 14000000 INFO @ Mon, 29 Jun 2020 22:54:13: 9000000 INFO @ Mon, 29 Jun 2020 22:54:14: 4000000 INFO @ Mon, 29 Jun 2020 22:54:17: 15000000 INFO @ Mon, 29 Jun 2020 22:54:19: 10000000 INFO @ Mon, 29 Jun 2020 22:54:20: 5000000 INFO @ Mon, 29 Jun 2020 22:54:23: 16000000 INFO @ Mon, 29 Jun 2020 22:54:25: 11000000 INFO @ Mon, 29 Jun 2020 22:54:27: 6000000 INFO @ Mon, 29 Jun 2020 22:54:29: 17000000 INFO @ Mon, 29 Jun 2020 22:54:31: 12000000 INFO @ Mon, 29 Jun 2020 22:54:33: 7000000 INFO @ Mon, 29 Jun 2020 22:54:36: 18000000 INFO @ Mon, 29 Jun 2020 22:54:38: 13000000 INFO @ Mon, 29 Jun 2020 22:54:40: 8000000 INFO @ Mon, 29 Jun 2020 22:54:42: 19000000 INFO @ Mon, 29 Jun 2020 22:54:44: 14000000 INFO @ Mon, 29 Jun 2020 22:54:46: 9000000 INFO @ Mon, 29 Jun 2020 22:54:48: 20000000 INFO @ Mon, 29 Jun 2020 22:54:50: 15000000 INFO @ Mon, 29 Jun 2020 22:54:53: 10000000 INFO @ Mon, 29 Jun 2020 22:54:54: 21000000 INFO @ Mon, 29 Jun 2020 22:54:56: 16000000 INFO @ Mon, 29 Jun 2020 22:54:59: 11000000 INFO @ Mon, 29 Jun 2020 22:55:01: 22000000 INFO @ Mon, 29 Jun 2020 22:55:03: 17000000 INFO @ Mon, 29 Jun 2020 22:55:05: 12000000 INFO @ Mon, 29 Jun 2020 22:55:07: 23000000 INFO @ Mon, 29 Jun 2020 22:55:09: 18000000 INFO @ Mon, 29 Jun 2020 22:55:12: 13000000 INFO @ Mon, 29 Jun 2020 22:55:13: 24000000 INFO @ Mon, 29 Jun 2020 22:55:15: 19000000 INFO @ Mon, 29 Jun 2020 22:55:18: 14000000 INFO @ Mon, 29 Jun 2020 22:55:20: 25000000 INFO @ Mon, 29 Jun 2020 22:55:21: 20000000 INFO @ Mon, 29 Jun 2020 22:55:25: 15000000 INFO @ Mon, 29 Jun 2020 22:55:26: 26000000 INFO @ Mon, 29 Jun 2020 22:55:29: 21000000 INFO @ Mon, 29 Jun 2020 22:55:31: 16000000 INFO @ Mon, 29 Jun 2020 22:55:33: 27000000 INFO @ Mon, 29 Jun 2020 22:55:34: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:55:34: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:55:34: #1 total tags in treatment: 27069728 INFO @ Mon, 29 Jun 2020 22:55:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:55:34: #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 22:55:34: #1 tags after filtering in treatment: 27069728 INFO @ Mon, 29 Jun 2020 22:55:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:55:34: #1 finished! INFO @ Mon, 29 Jun 2020 22:55:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:55:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:55:35: 22000000 INFO @ Mon, 29 Jun 2020 22:55:36: #2 number of paired peaks: 83 WARNING @ Mon, 29 Jun 2020 22:55:36: Too few paired peaks (83) 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 22:55:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 13 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:55:38: 17000000 INFO @ Mon, 29 Jun 2020 22:55:41: 23000000 INFO @ Mon, 29 Jun 2020 22:55:45: 18000000 INFO @ Mon, 29 Jun 2020 22:55:48: 24000000 INFO @ Mon, 29 Jun 2020 22:55:51: 19000000 INFO @ Mon, 29 Jun 2020 22:55:54: 25000000 INFO @ Mon, 29 Jun 2020 22:55:58: 20000000 INFO @ Mon, 29 Jun 2020 22:56:01: 26000000 INFO @ Mon, 29 Jun 2020 22:56:04: 21000000 INFO @ Mon, 29 Jun 2020 22:56:07: 27000000 INFO @ Mon, 29 Jun 2020 22:56:08: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:56:08: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:56:08: #1 total tags in treatment: 27069728 INFO @ Mon, 29 Jun 2020 22:56:08: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:56:08: #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 22:56:08: #1 tags after filtering in treatment: 27069728 INFO @ Mon, 29 Jun 2020 22:56:08: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:56:08: #1 finished! INFO @ Mon, 29 Jun 2020 22:56:08: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:56:08: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:56:10: #2 number of paired peaks: 83 WARNING @ Mon, 29 Jun 2020 22:56:10: Too few paired peaks (83) 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 22:56:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.10_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/SRX1837293/SRX1837293.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:56:10: 22000000 INFO @ Mon, 29 Jun 2020 22:56:16: 23000000 INFO @ Mon, 29 Jun 2020 22:56:22: 24000000 INFO @ Mon, 29 Jun 2020 22:56:28: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:56:34: 26000000 INFO @ Mon, 29 Jun 2020 22:56:41: 27000000 INFO @ Mon, 29 Jun 2020 22:56:41: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 22:56:41: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 22:56:41: #1 total tags in treatment: 27069728 INFO @ Mon, 29 Jun 2020 22:56:41: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:56:41: #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 22:56:42: #1 tags after filtering in treatment: 27069728 INFO @ Mon, 29 Jun 2020 22:56:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:56:42: #1 finished! INFO @ Mon, 29 Jun 2020 22:56:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:56:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:56:44: #2 number of paired peaks: 83 WARNING @ Mon, 29 Jun 2020 22:56:44: Too few paired peaks (83) 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 22:56:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1837293/SRX1837293.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。