Job ID = 6527648 SRX = SRX1840078 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:51:24 prefetch.2.10.7: 1) Downloading 'SRR3661304'... 2020-06-29T12:51:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:58:48 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:58:48 prefetch.2.10.7: 1) 'SRR3661304' was downloaded successfully Read 30646875 spots for SRR3661304/SRR3661304.sra Written 30646875 spots for SRR3661304/SRR3661304.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: 00:17:08 30646875 reads; of these: 30646875 (100.00%) were unpaired; of these: 673421 (2.20%) aligned 0 times 22909701 (74.75%) aligned exactly 1 time 7063753 (23.05%) aligned >1 times 97.80% overall alignment rate Time searching: 00:17:08 Overall time: 00:17:08 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] 2978251 / 29973454 = 0.0994 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 22:45:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.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 22:45:02: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:45:02: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:45:11: 1000000 INFO @ Mon, 29 Jun 2020 22:45:19: 2000000 INFO @ Mon, 29 Jun 2020 22:45:27: 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 22:45:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.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 22:45:32: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:45:32: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:45:34: 4000000 INFO @ Mon, 29 Jun 2020 22:45:40: 1000000 INFO @ Mon, 29 Jun 2020 22:45:42: 5000000 INFO @ Mon, 29 Jun 2020 22:45:49: 2000000 INFO @ Mon, 29 Jun 2020 22:45:50: 6000000 INFO @ Mon, 29 Jun 2020 22:45:57: 3000000 INFO @ Mon, 29 Jun 2020 22:45:58: 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 @ Mon, 29 Jun 2020 22:46:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.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 22:46:02: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:46:02: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:46:04: 4000000 INFO @ Mon, 29 Jun 2020 22:46:05: 8000000 INFO @ Mon, 29 Jun 2020 22:46:10: 1000000 INFO @ Mon, 29 Jun 2020 22:46:12: 5000000 INFO @ Mon, 29 Jun 2020 22:46:13: 9000000 INFO @ Mon, 29 Jun 2020 22:46:19: 2000000 INFO @ Mon, 29 Jun 2020 22:46:20: 6000000 INFO @ Mon, 29 Jun 2020 22:46:21: 10000000 INFO @ Mon, 29 Jun 2020 22:46:27: 3000000 INFO @ Mon, 29 Jun 2020 22:46:28: 7000000 INFO @ Mon, 29 Jun 2020 22:46:30: 11000000 INFO @ Mon, 29 Jun 2020 22:46:34: 4000000 INFO @ Mon, 29 Jun 2020 22:46:36: 8000000 INFO @ Mon, 29 Jun 2020 22:46:38: 12000000 INFO @ Mon, 29 Jun 2020 22:46:42: 5000000 INFO @ Mon, 29 Jun 2020 22:46:43: 9000000 INFO @ Mon, 29 Jun 2020 22:46:46: 13000000 INFO @ Mon, 29 Jun 2020 22:46:50: 6000000 INFO @ Mon, 29 Jun 2020 22:46:51: 10000000 INFO @ Mon, 29 Jun 2020 22:46:54: 14000000 INFO @ Mon, 29 Jun 2020 22:46:57: 7000000 INFO @ Mon, 29 Jun 2020 22:46:59: 11000000 INFO @ Mon, 29 Jun 2020 22:47:02: 15000000 INFO @ Mon, 29 Jun 2020 22:47:05: 8000000 INFO @ Mon, 29 Jun 2020 22:47:07: 12000000 INFO @ Mon, 29 Jun 2020 22:47:10: 16000000 INFO @ Mon, 29 Jun 2020 22:47:13: 9000000 INFO @ Mon, 29 Jun 2020 22:47:15: 13000000 INFO @ Mon, 29 Jun 2020 22:47:17: 17000000 INFO @ Mon, 29 Jun 2020 22:47:21: 10000000 INFO @ Mon, 29 Jun 2020 22:47:23: 14000000 INFO @ Mon, 29 Jun 2020 22:47:25: 18000000 INFO @ Mon, 29 Jun 2020 22:47:29: 11000000 INFO @ Mon, 29 Jun 2020 22:47:31: 15000000 INFO @ Mon, 29 Jun 2020 22:47:33: 19000000 INFO @ Mon, 29 Jun 2020 22:47:37: 12000000 INFO @ Mon, 29 Jun 2020 22:47:39: 16000000 INFO @ Mon, 29 Jun 2020 22:47:41: 20000000 INFO @ Mon, 29 Jun 2020 22:47:44: 13000000 INFO @ Mon, 29 Jun 2020 22:47:47: 17000000 INFO @ Mon, 29 Jun 2020 22:47:48: 21000000 INFO @ Mon, 29 Jun 2020 22:47:52: 14000000 INFO @ Mon, 29 Jun 2020 22:47:55: 18000000 INFO @ Mon, 29 Jun 2020 22:47:56: 22000000 INFO @ Mon, 29 Jun 2020 22:48:00: 15000000 INFO @ Mon, 29 Jun 2020 22:48:03: 19000000 INFO @ Mon, 29 Jun 2020 22:48:04: 23000000 INFO @ Mon, 29 Jun 2020 22:48:08: 16000000 INFO @ Mon, 29 Jun 2020 22:48:11: 20000000 INFO @ Mon, 29 Jun 2020 22:48:11: 24000000 INFO @ Mon, 29 Jun 2020 22:48:16: 17000000 INFO @ Mon, 29 Jun 2020 22:48:19: 21000000 INFO @ Mon, 29 Jun 2020 22:48:19: 25000000 INFO @ Mon, 29 Jun 2020 22:48:24: 18000000 INFO @ Mon, 29 Jun 2020 22:48:26: 22000000 INFO @ Mon, 29 Jun 2020 22:48:26: 26000000 INFO @ Mon, 29 Jun 2020 22:48:32: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:48:34: #1 tag size is determined as 101 bps INFO @ Mon, 29 Jun 2020 22:48:34: #1 tag size = 101 INFO @ Mon, 29 Jun 2020 22:48:34: #1 total tags in treatment: 26995203 INFO @ Mon, 29 Jun 2020 22:48:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:48:34: #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 22:48:34: 23000000 INFO @ Mon, 29 Jun 2020 22:48:35: #1 tags after filtering in treatment: 26995203 INFO @ Mon, 29 Jun 2020 22:48:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:48:35: #1 finished! INFO @ Mon, 29 Jun 2020 22:48:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:48:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:48:36: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:48:36: Too few paired peaks (6) 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 22:48:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.05_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/SRX1840078/SRX1840078.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:48:40: 20000000 INFO @ Mon, 29 Jun 2020 22:48:42: 24000000 INFO @ Mon, 29 Jun 2020 22:48:47: 21000000 INFO @ Mon, 29 Jun 2020 22:48:50: 25000000 INFO @ Mon, 29 Jun 2020 22:48:55: 22000000 INFO @ Mon, 29 Jun 2020 22:48:57: 26000000 INFO @ Mon, 29 Jun 2020 22:49:02: 23000000 INFO @ Mon, 29 Jun 2020 22:49:05: #1 tag size is determined as 101 bps INFO @ Mon, 29 Jun 2020 22:49:05: #1 tag size = 101 INFO @ Mon, 29 Jun 2020 22:49:05: #1 total tags in treatment: 26995203 INFO @ Mon, 29 Jun 2020 22:49:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:49:05: #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 22:49:05: #1 tags after filtering in treatment: 26995203 INFO @ Mon, 29 Jun 2020 22:49:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:49:05: #1 finished! INFO @ Mon, 29 Jun 2020 22:49:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:49:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:49:07: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:49:07: Too few paired peaks (6) 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 22:49:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.10_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/SRX1840078/SRX1840078.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:49:10: 24000000 INFO @ Mon, 29 Jun 2020 22:49:17: 25000000 INFO @ Mon, 29 Jun 2020 22:49:24: 26000000 INFO @ Mon, 29 Jun 2020 22:49:31: #1 tag size is determined as 101 bps INFO @ Mon, 29 Jun 2020 22:49:31: #1 tag size = 101 INFO @ Mon, 29 Jun 2020 22:49:31: #1 total tags in treatment: 26995203 INFO @ Mon, 29 Jun 2020 22:49:31: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:49:31: #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 22:49:31: #1 tags after filtering in treatment: 26995203 INFO @ Mon, 29 Jun 2020 22:49:31: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:49:31: #1 finished! INFO @ Mon, 29 Jun 2020 22:49:31: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:49:31: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:49:33: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:49:33: Too few paired peaks (6) 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 22:49:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1840078/SRX1840078.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。