Job ID = 6527613 SRX = SRX1433363 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:10:39 prefetch.2.10.7: 1) Downloading 'SRR2919828'... 2020-06-29T13:10:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:14:38 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:14:38 prefetch.2.10.7: 1) 'SRR2919828' was downloaded successfully Read 40210964 spots for SRR2919828/SRR2919828.sra Written 40210964 spots for SRR2919828/SRR2919828.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: 00:11:59 40210964 reads; of these: 40210964 (100.00%) were unpaired; of these: 1011379 (2.52%) aligned 0 times 30139553 (74.95%) aligned exactly 1 time 9060032 (22.53%) aligned >1 times 97.48% overall alignment rate Time searching: 00:11:59 Overall time: 00:11:59 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] 8666733 / 39199585 = 0.2211 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 22:44:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.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 22:44:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:44:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:44:35: 1000000 INFO @ Mon, 29 Jun 2020 22:44:40: 2000000 INFO @ Mon, 29 Jun 2020 22:44:46: 3000000 INFO @ Mon, 29 Jun 2020 22:44:51: 4000000 INFO @ Mon, 29 Jun 2020 22:44:56: 5000000 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 22:45:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.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 22:45:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:45:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:45:02: 6000000 INFO @ Mon, 29 Jun 2020 22:45:06: 1000000 INFO @ Mon, 29 Jun 2020 22:45:08: 7000000 INFO @ Mon, 29 Jun 2020 22:45:12: 2000000 INFO @ Mon, 29 Jun 2020 22:45:14: 8000000 INFO @ Mon, 29 Jun 2020 22:45:18: 3000000 INFO @ Mon, 29 Jun 2020 22:45:21: 9000000 INFO @ Mon, 29 Jun 2020 22:45:25: 4000000 INFO @ Mon, 29 Jun 2020 22:45:27: 10000000 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 22:45:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.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 22:45:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:45:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:45:31: 5000000 INFO @ Mon, 29 Jun 2020 22:45:33: 11000000 INFO @ Mon, 29 Jun 2020 22:45:36: 1000000 INFO @ Mon, 29 Jun 2020 22:45:37: 6000000 INFO @ Mon, 29 Jun 2020 22:45:39: 12000000 INFO @ Mon, 29 Jun 2020 22:45:42: 2000000 INFO @ Mon, 29 Jun 2020 22:45:43: 7000000 INFO @ Mon, 29 Jun 2020 22:45:46: 13000000 INFO @ Mon, 29 Jun 2020 22:45:48: 3000000 INFO @ Mon, 29 Jun 2020 22:45:49: 8000000 INFO @ Mon, 29 Jun 2020 22:45:52: 14000000 INFO @ Mon, 29 Jun 2020 22:45:54: 4000000 INFO @ Mon, 29 Jun 2020 22:45:56: 9000000 INFO @ Mon, 29 Jun 2020 22:45:58: 15000000 INFO @ Mon, 29 Jun 2020 22:46:01: 5000000 INFO @ Mon, 29 Jun 2020 22:46:02: 10000000 INFO @ Mon, 29 Jun 2020 22:46:04: 16000000 INFO @ Mon, 29 Jun 2020 22:46:07: 6000000 INFO @ Mon, 29 Jun 2020 22:46:08: 11000000 INFO @ Mon, 29 Jun 2020 22:46:10: 17000000 INFO @ Mon, 29 Jun 2020 22:46:13: 7000000 INFO @ Mon, 29 Jun 2020 22:46:14: 12000000 INFO @ Mon, 29 Jun 2020 22:46:16: 18000000 INFO @ Mon, 29 Jun 2020 22:46:19: 8000000 INFO @ Mon, 29 Jun 2020 22:46:20: 13000000 INFO @ Mon, 29 Jun 2020 22:46:22: 19000000 INFO @ Mon, 29 Jun 2020 22:46:25: 9000000 INFO @ Mon, 29 Jun 2020 22:46:26: 14000000 INFO @ Mon, 29 Jun 2020 22:46:28: 20000000 INFO @ Mon, 29 Jun 2020 22:46:32: 10000000 INFO @ Mon, 29 Jun 2020 22:46:32: 15000000 INFO @ Mon, 29 Jun 2020 22:46:34: 21000000 INFO @ Mon, 29 Jun 2020 22:46:38: 11000000 INFO @ Mon, 29 Jun 2020 22:46:38: 16000000 INFO @ Mon, 29 Jun 2020 22:46:40: 22000000 INFO @ Mon, 29 Jun 2020 22:46:44: 12000000 INFO @ Mon, 29 Jun 2020 22:46:44: 17000000 INFO @ Mon, 29 Jun 2020 22:46:46: 23000000 INFO @ Mon, 29 Jun 2020 22:46:50: 13000000 INFO @ Mon, 29 Jun 2020 22:46:50: 18000000 INFO @ Mon, 29 Jun 2020 22:46:53: 24000000 INFO @ Mon, 29 Jun 2020 22:46:56: 14000000 INFO @ Mon, 29 Jun 2020 22:46:56: 19000000 INFO @ Mon, 29 Jun 2020 22:46:59: 25000000 INFO @ Mon, 29 Jun 2020 22:47:02: 15000000 INFO @ Mon, 29 Jun 2020 22:47:02: 20000000 INFO @ Mon, 29 Jun 2020 22:47:05: 26000000 INFO @ Mon, 29 Jun 2020 22:47:08: 16000000 INFO @ Mon, 29 Jun 2020 22:47:08: 21000000 INFO @ Mon, 29 Jun 2020 22:47:11: 27000000 INFO @ Mon, 29 Jun 2020 22:47:14: 17000000 INFO @ Mon, 29 Jun 2020 22:47:14: 22000000 INFO @ Mon, 29 Jun 2020 22:47:17: 28000000 INFO @ Mon, 29 Jun 2020 22:47:20: 18000000 INFO @ Mon, 29 Jun 2020 22:47:20: 23000000 INFO @ Mon, 29 Jun 2020 22:47:24: 29000000 INFO @ Mon, 29 Jun 2020 22:47:26: 19000000 INFO @ Mon, 29 Jun 2020 22:47:26: 24000000 INFO @ Mon, 29 Jun 2020 22:47:30: 30000000 INFO @ Mon, 29 Jun 2020 22:47:32: 20000000 INFO @ Mon, 29 Jun 2020 22:47:33: 25000000 INFO @ Mon, 29 Jun 2020 22:47:33: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:47:33: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:47:33: #1 total tags in treatment: 30532852 INFO @ Mon, 29 Jun 2020 22:47:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:47:33: #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 22:47:34: #1 tags after filtering in treatment: 30532852 INFO @ Mon, 29 Jun 2020 22:47:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:47:34: #1 finished! INFO @ Mon, 29 Jun 2020 22:47:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:47:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:47:36: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:47:36: Too few paired peaks (55) 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 22:47:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.05_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/SRX1433363/SRX1433363.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:47:38: 21000000 INFO @ Mon, 29 Jun 2020 22:47:39: 26000000 INFO @ Mon, 29 Jun 2020 22:47:44: 22000000 INFO @ Mon, 29 Jun 2020 22:47:45: 27000000 INFO @ Mon, 29 Jun 2020 22:47:50: 23000000 INFO @ Mon, 29 Jun 2020 22:47:51: 28000000 INFO @ Mon, 29 Jun 2020 22:47:56: 24000000 INFO @ Mon, 29 Jun 2020 22:47:57: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:48:03: 25000000 INFO @ Mon, 29 Jun 2020 22:48:04: 30000000 INFO @ Mon, 29 Jun 2020 22:48:07: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:48:07: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:48:07: #1 total tags in treatment: 30532852 INFO @ Mon, 29 Jun 2020 22:48:07: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:48:07: #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 22:48:07: #1 tags after filtering in treatment: 30532852 INFO @ Mon, 29 Jun 2020 22:48:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:48:07: #1 finished! INFO @ Mon, 29 Jun 2020 22:48:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:48:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:48:09: 26000000 INFO @ Mon, 29 Jun 2020 22:48:09: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:48:09: Too few paired peaks (55) 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 22:48:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.10_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/SRX1433363/SRX1433363.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:48:15: 27000000 INFO @ Mon, 29 Jun 2020 22:48:20: 28000000 INFO @ Mon, 29 Jun 2020 22:48:26: 29000000 INFO @ Mon, 29 Jun 2020 22:48:32: 30000000 INFO @ Mon, 29 Jun 2020 22:48:35: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:48:35: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:48:35: #1 total tags in treatment: 30532852 INFO @ Mon, 29 Jun 2020 22:48:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:48:35: #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 22:48:36: #1 tags after filtering in treatment: 30532852 INFO @ Mon, 29 Jun 2020 22:48:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:48:36: #1 finished! INFO @ Mon, 29 Jun 2020 22:48:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:48:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:48:38: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:48:38: Too few paired peaks (55) 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 22:48:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.20_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/SRX1433363/SRX1433363.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1433363/SRX1433363.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。