Job ID = 6527740 SRX = SRX2618493 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:26:09 prefetch.2.10.7: 1) Downloading 'SRR5319047'... 2020-06-29T13:26:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:27:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:27:56 prefetch.2.10.7: 'SRR5319047' is valid 2020-06-29T13:27:56 prefetch.2.10.7: 1) 'SRR5319047' was downloaded successfully 2020-06-29T13:27:56 prefetch.2.10.7: 'SRR5319047' has 0 unresolved dependencies Read 23114100 spots for SRR5319047/SRR5319047.sra Written 23114100 spots for SRR5319047/SRR5319047.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: 00:06:25 23114100 reads; of these: 23114100 (100.00%) were unpaired; of these: 1097079 (4.75%) aligned 0 times 17841347 (77.19%) aligned exactly 1 time 4175674 (18.07%) aligned >1 times 95.25% overall alignment rate Time searching: 00:06:25 Overall time: 00:06:25 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 12 files... [bam_rmdupse_core] 2163356 / 22017021 = 0.0983 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 22:45:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.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 22:45:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:45:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:45:44: 1000000 INFO @ Mon, 29 Jun 2020 22:45:50: 2000000 INFO @ Mon, 29 Jun 2020 22:45:56: 3000000 INFO @ Mon, 29 Jun 2020 22:46:03: 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 22:46:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.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 22:46:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:46:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:46:09: 5000000 INFO @ Mon, 29 Jun 2020 22:46:14: 1000000 INFO @ Mon, 29 Jun 2020 22:46:16: 6000000 INFO @ Mon, 29 Jun 2020 22:46:21: 2000000 INFO @ Mon, 29 Jun 2020 22:46:23: 7000000 INFO @ Mon, 29 Jun 2020 22:46:28: 3000000 INFO @ Mon, 29 Jun 2020 22:46:30: 8000000 INFO @ Mon, 29 Jun 2020 22:46:34: 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 22:46:37: 9000000 INFO @ Mon, 29 Jun 2020 22:46:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.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 22:46:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:46:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:46:41: 5000000 INFO @ Mon, 29 Jun 2020 22:46:44: 10000000 INFO @ Mon, 29 Jun 2020 22:46:44: 1000000 INFO @ Mon, 29 Jun 2020 22:46:48: 6000000 INFO @ Mon, 29 Jun 2020 22:46:51: 11000000 INFO @ Mon, 29 Jun 2020 22:46:51: 2000000 INFO @ Mon, 29 Jun 2020 22:46:55: 7000000 INFO @ Mon, 29 Jun 2020 22:46:58: 12000000 INFO @ Mon, 29 Jun 2020 22:46:58: 3000000 INFO @ Mon, 29 Jun 2020 22:47:02: 8000000 INFO @ Mon, 29 Jun 2020 22:47:05: 13000000 INFO @ Mon, 29 Jun 2020 22:47:05: 4000000 INFO @ Mon, 29 Jun 2020 22:47:08: 9000000 INFO @ Mon, 29 Jun 2020 22:47:12: 14000000 INFO @ Mon, 29 Jun 2020 22:47:12: 5000000 INFO @ Mon, 29 Jun 2020 22:47:15: 10000000 INFO @ Mon, 29 Jun 2020 22:47:18: 15000000 INFO @ Mon, 29 Jun 2020 22:47:19: 6000000 INFO @ Mon, 29 Jun 2020 22:47:22: 11000000 INFO @ Mon, 29 Jun 2020 22:47:25: 7000000 INFO @ Mon, 29 Jun 2020 22:47:26: 16000000 INFO @ Mon, 29 Jun 2020 22:47:29: 12000000 INFO @ Mon, 29 Jun 2020 22:47:32: 8000000 INFO @ Mon, 29 Jun 2020 22:47:33: 17000000 INFO @ Mon, 29 Jun 2020 22:47:36: 13000000 INFO @ Mon, 29 Jun 2020 22:47:39: 9000000 INFO @ Mon, 29 Jun 2020 22:47:40: 18000000 INFO @ Mon, 29 Jun 2020 22:47:42: 14000000 INFO @ Mon, 29 Jun 2020 22:47:46: 10000000 INFO @ Mon, 29 Jun 2020 22:47:47: 19000000 INFO @ Mon, 29 Jun 2020 22:47:49: 15000000 INFO @ Mon, 29 Jun 2020 22:47:53: 11000000 INFO @ Mon, 29 Jun 2020 22:47:53: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:47:53: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:47:53: #1 total tags in treatment: 19853665 INFO @ Mon, 29 Jun 2020 22:47:53: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:47:53: #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 22:47:53: #1 tags after filtering in treatment: 19853665 INFO @ Mon, 29 Jun 2020 22:47:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:47:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:47:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:47:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:47:54: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 22:47:54: Too few paired peaks (69) 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 22:47:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.05_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/SRX2618493/SRX2618493.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:47:56: 16000000 INFO @ Mon, 29 Jun 2020 22:47:59: 12000000 INFO @ Mon, 29 Jun 2020 22:48:03: 17000000 INFO @ Mon, 29 Jun 2020 22:48:06: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:48:10: 18000000 INFO @ Mon, 29 Jun 2020 22:48:13: 14000000 INFO @ Mon, 29 Jun 2020 22:48:16: 19000000 INFO @ Mon, 29 Jun 2020 22:48:20: 15000000 INFO @ Mon, 29 Jun 2020 22:48:22: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:48:22: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:48:22: #1 total tags in treatment: 19853665 INFO @ Mon, 29 Jun 2020 22:48:22: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:48:22: #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 22:48:23: #1 tags after filtering in treatment: 19853665 INFO @ Mon, 29 Jun 2020 22:48:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:48:23: #1 finished! INFO @ Mon, 29 Jun 2020 22:48:23: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:48:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:48:24: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 22:48:24: Too few paired peaks (69) 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 22:48:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.10_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/SRX2618493/SRX2618493.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:48:26: 16000000 INFO @ Mon, 29 Jun 2020 22:48:33: 17000000 INFO @ Mon, 29 Jun 2020 22:48:39: 18000000 INFO @ Mon, 29 Jun 2020 22:48:46: 19000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 22:48:51: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:48:51: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:48:51: #1 total tags in treatment: 19853665 INFO @ Mon, 29 Jun 2020 22:48:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:48:51: #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 22:48:52: #1 tags after filtering in treatment: 19853665 INFO @ Mon, 29 Jun 2020 22:48:52: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:48:52: #1 finished! INFO @ Mon, 29 Jun 2020 22:48:52: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:48:52: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:48:53: #2 number of paired peaks: 69 WARNING @ Mon, 29 Jun 2020 22:48:53: Too few paired peaks (69) 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 22:48:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.20_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/SRX2618493/SRX2618493.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2618493/SRX2618493.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling