Job ID = 6527496 SRX = SRX033314 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:27:22 prefetch.2.10.7: 1) Downloading 'SRR080707'... 2020-06-29T12:27:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:29:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:29:43 prefetch.2.10.7: 'SRR080707' is valid 2020-06-29T12:29:43 prefetch.2.10.7: 1) 'SRR080707' was downloaded successfully Read 23969437 spots for SRR080707/SRR080707.sra Written 23969437 spots for SRR080707/SRR080707.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: 00:05:49 23969437 reads; of these: 23969437 (100.00%) were unpaired; of these: 719303 (3.00%) aligned 0 times 19901481 (83.03%) aligned exactly 1 time 3348653 (13.97%) aligned >1 times 97.00% overall alignment rate Time searching: 00:05:49 Overall time: 00:05:49 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 8 files... [bam_rmdupse_core] 3438807 / 23250134 = 0.1479 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 21:45:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.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 21:45:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:45:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:45:14: 1000000 INFO @ Mon, 29 Jun 2020 21:45:20: 2000000 INFO @ Mon, 29 Jun 2020 21:45:26: 3000000 INFO @ Mon, 29 Jun 2020 21:45:33: 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 21:45:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.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 21:45:38: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:45:38: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:45:40: 5000000 INFO @ Mon, 29 Jun 2020 21:45:44: 1000000 INFO @ Mon, 29 Jun 2020 21:45:47: 6000000 INFO @ Mon, 29 Jun 2020 21:45:50: 2000000 INFO @ Mon, 29 Jun 2020 21:45:54: 7000000 INFO @ Mon, 29 Jun 2020 21:45:55: 3000000 INFO @ Mon, 29 Jun 2020 21:46:00: 8000000 INFO @ Mon, 29 Jun 2020 21:46:01: 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 21:46:07: 9000000 INFO @ Mon, 29 Jun 2020 21:46:07: 5000000 INFO @ Mon, 29 Jun 2020 21:46:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.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 21:46:08: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:46:08: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:46:13: 6000000 INFO @ Mon, 29 Jun 2020 21:46:13: 10000000 INFO @ Mon, 29 Jun 2020 21:46:14: 1000000 INFO @ Mon, 29 Jun 2020 21:46:19: 7000000 INFO @ Mon, 29 Jun 2020 21:46:20: 11000000 INFO @ Mon, 29 Jun 2020 21:46:20: 2000000 INFO @ Mon, 29 Jun 2020 21:46:25: 8000000 INFO @ Mon, 29 Jun 2020 21:46:26: 3000000 INFO @ Mon, 29 Jun 2020 21:46:27: 12000000 INFO @ Mon, 29 Jun 2020 21:46:31: 9000000 INFO @ Mon, 29 Jun 2020 21:46:33: 4000000 INFO @ Mon, 29 Jun 2020 21:46:34: 13000000 INFO @ Mon, 29 Jun 2020 21:46:37: 10000000 INFO @ Mon, 29 Jun 2020 21:46:39: 5000000 INFO @ Mon, 29 Jun 2020 21:46:40: 14000000 INFO @ Mon, 29 Jun 2020 21:46:43: 11000000 INFO @ Mon, 29 Jun 2020 21:46:45: 6000000 INFO @ Mon, 29 Jun 2020 21:46:47: 15000000 INFO @ Mon, 29 Jun 2020 21:46:49: 12000000 INFO @ Mon, 29 Jun 2020 21:46:51: 7000000 INFO @ Mon, 29 Jun 2020 21:46:53: 16000000 INFO @ Mon, 29 Jun 2020 21:46:55: 13000000 INFO @ Mon, 29 Jun 2020 21:46:57: 8000000 INFO @ Mon, 29 Jun 2020 21:47:00: 17000000 INFO @ Mon, 29 Jun 2020 21:47:01: 14000000 INFO @ Mon, 29 Jun 2020 21:47:03: 9000000 INFO @ Mon, 29 Jun 2020 21:47:07: 18000000 INFO @ Mon, 29 Jun 2020 21:47:07: 15000000 INFO @ Mon, 29 Jun 2020 21:47:09: 10000000 INFO @ Mon, 29 Jun 2020 21:47:13: 16000000 INFO @ Mon, 29 Jun 2020 21:47:13: 19000000 INFO @ Mon, 29 Jun 2020 21:47:15: 11000000 INFO @ Mon, 29 Jun 2020 21:47:18: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:47:18: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:47:18: #1 total tags in treatment: 19811327 INFO @ Mon, 29 Jun 2020 21:47:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:47:18: #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 21:47:18: #1 tags after filtering in treatment: 19811327 INFO @ Mon, 29 Jun 2020 21:47:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:47:18: #1 finished! INFO @ Mon, 29 Jun 2020 21:47:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:47:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:47:19: 17000000 INFO @ Mon, 29 Jun 2020 21:47:20: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 21:47:20: Too few paired peaks (85) 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 21:47:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.05_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/SRX033314/SRX033314.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:47:21: 12000000 INFO @ Mon, 29 Jun 2020 21:47:24: 18000000 INFO @ Mon, 29 Jun 2020 21:47:27: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:47:30: 19000000 INFO @ Mon, 29 Jun 2020 21:47:32: 14000000 INFO @ Mon, 29 Jun 2020 21:47:34: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:47:34: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:47:34: #1 total tags in treatment: 19811327 INFO @ Mon, 29 Jun 2020 21:47:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:47:34: #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 21:47:35: #1 tags after filtering in treatment: 19811327 INFO @ Mon, 29 Jun 2020 21:47:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:47:35: #1 finished! INFO @ Mon, 29 Jun 2020 21:47:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:47:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:47:36: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 21:47:36: Too few paired peaks (85) 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 21:47:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.10_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/SRX033314/SRX033314.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:47:38: 15000000 INFO @ Mon, 29 Jun 2020 21:47:43: 16000000 INFO @ Mon, 29 Jun 2020 21:47:48: 17000000 INFO @ Mon, 29 Jun 2020 21:47:53: 18000000 INFO @ Mon, 29 Jun 2020 21:47:58: 19000000 INFO @ Mon, 29 Jun 2020 21:48:02: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:48:02: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:48:02: #1 total tags in treatment: 19811327 INFO @ Mon, 29 Jun 2020 21:48:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:48:02: #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 21:48:02: #1 tags after filtering in treatment: 19811327 INFO @ Mon, 29 Jun 2020 21:48:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:48:02: #1 finished! INFO @ Mon, 29 Jun 2020 21:48:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:48:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:48:04: #2 number of paired peaks: 85 WARNING @ Mon, 29 Jun 2020 21:48:04: Too few paired peaks (85) 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 21:48:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.20_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/SRX033314/SRX033314.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX033314/SRX033314.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。