Job ID = 6527546 SRX = SRX1084164 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:21:25 prefetch.2.10.7: 1) Downloading 'SRR2088910'... 2020-06-29T12:21:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:30:10 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:30:10 prefetch.2.10.7: 1) 'SRR2088910' was downloaded successfully Read 24891608 spots for SRR2088910/SRR2088910.sra Written 24891608 spots for SRR2088910/SRR2088910.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: 00:16:48 24891608 reads; of these: 24891608 (100.00%) were unpaired; of these: 1394711 (5.60%) aligned 0 times 17036769 (68.44%) aligned exactly 1 time 6460128 (25.95%) aligned >1 times 94.40% overall alignment rate Time searching: 00:16:48 Overall time: 00:16:48 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] 3018774 / 23496897 = 0.1285 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 22:15:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.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 22:15:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:18: 1000000 INFO @ Mon, 29 Jun 2020 22:15:25: 2000000 INFO @ Mon, 29 Jun 2020 22:15:33: 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 22:15:40: 4000000 INFO @ Mon, 29 Jun 2020 22:15:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.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 22:15:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:15:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:15:47: 5000000 INFO @ Mon, 29 Jun 2020 22:15:49: 1000000 INFO @ Mon, 29 Jun 2020 22:15:55: 6000000 INFO @ Mon, 29 Jun 2020 22:15:57: 2000000 INFO @ Mon, 29 Jun 2020 22:16:02: 7000000 INFO @ Mon, 29 Jun 2020 22:16:05: 3000000 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 22:16:10: 8000000 INFO @ Mon, 29 Jun 2020 22:16:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.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 22:16:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:16:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:16:13: 4000000 INFO @ Mon, 29 Jun 2020 22:16:19: 9000000 INFO @ Mon, 29 Jun 2020 22:16:19: 1000000 INFO @ Mon, 29 Jun 2020 22:16:22: 5000000 INFO @ Mon, 29 Jun 2020 22:16:27: 10000000 INFO @ Mon, 29 Jun 2020 22:16:28: 2000000 INFO @ Mon, 29 Jun 2020 22:16:30: 6000000 INFO @ Mon, 29 Jun 2020 22:16:36: 11000000 INFO @ Mon, 29 Jun 2020 22:16:37: 3000000 INFO @ Mon, 29 Jun 2020 22:16:38: 7000000 INFO @ Mon, 29 Jun 2020 22:16:45: 12000000 INFO @ Mon, 29 Jun 2020 22:16:46: 4000000 INFO @ Mon, 29 Jun 2020 22:16:47: 8000000 INFO @ Mon, 29 Jun 2020 22:16:54: 13000000 INFO @ Mon, 29 Jun 2020 22:16:55: 5000000 INFO @ Mon, 29 Jun 2020 22:16:55: 9000000 INFO @ Mon, 29 Jun 2020 22:17:03: 14000000 INFO @ Mon, 29 Jun 2020 22:17:04: 10000000 INFO @ Mon, 29 Jun 2020 22:17:04: 6000000 INFO @ Mon, 29 Jun 2020 22:17:13: 15000000 INFO @ Mon, 29 Jun 2020 22:17:13: 11000000 INFO @ Mon, 29 Jun 2020 22:17:13: 7000000 INFO @ Mon, 29 Jun 2020 22:17:22: 12000000 INFO @ Mon, 29 Jun 2020 22:17:22: 16000000 INFO @ Mon, 29 Jun 2020 22:17:23: 8000000 INFO @ Mon, 29 Jun 2020 22:17:30: 13000000 INFO @ Mon, 29 Jun 2020 22:17:32: 17000000 INFO @ Mon, 29 Jun 2020 22:17:33: 9000000 INFO @ Mon, 29 Jun 2020 22:17:39: 14000000 INFO @ Mon, 29 Jun 2020 22:17:42: 18000000 INFO @ Mon, 29 Jun 2020 22:17:43: 10000000 INFO @ Mon, 29 Jun 2020 22:17:48: 15000000 INFO @ Mon, 29 Jun 2020 22:17:52: 19000000 INFO @ Mon, 29 Jun 2020 22:17:53: 11000000 INFO @ Mon, 29 Jun 2020 22:17:57: 16000000 INFO @ Mon, 29 Jun 2020 22:18:01: 20000000 INFO @ Mon, 29 Jun 2020 22:18:02: 12000000 INFO @ Mon, 29 Jun 2020 22:18:06: 17000000 INFO @ Mon, 29 Jun 2020 22:18:06: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:18:06: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:18:06: #1 total tags in treatment: 20478123 INFO @ Mon, 29 Jun 2020 22:18:06: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:18:06: #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 22:18:07: #1 tags after filtering in treatment: 20478123 INFO @ Mon, 29 Jun 2020 22:18:07: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:18:07: #1 finished! INFO @ Mon, 29 Jun 2020 22:18:07: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:18:07: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:18:08: #2 number of paired peaks: 86 WARNING @ Mon, 29 Jun 2020 22:18:08: Too few paired peaks (86) 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 22:18:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.05_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/SRX1084164/SRX1084164.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:18:12: 13000000 INFO @ Mon, 29 Jun 2020 22:18:15: 18000000 INFO @ Mon, 29 Jun 2020 22:18:21: 14000000 INFO @ Mon, 29 Jun 2020 22:18:23: 19000000 INFO @ Mon, 29 Jun 2020 22:18:30: 15000000 INFO @ Mon, 29 Jun 2020 22:18:32: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:18:36: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:18:36: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:18:36: #1 total tags in treatment: 20478123 INFO @ Mon, 29 Jun 2020 22:18:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:18:36: #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 22:18:36: #1 tags after filtering in treatment: 20478123 INFO @ Mon, 29 Jun 2020 22:18:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:18:36: #1 finished! INFO @ Mon, 29 Jun 2020 22:18:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:18:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:18:38: #2 number of paired peaks: 86 WARNING @ Mon, 29 Jun 2020 22:18:38: Too few paired peaks (86) 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 22:18:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.10_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/SRX1084164/SRX1084164.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:18:39: 16000000 INFO @ Mon, 29 Jun 2020 22:18:48: 17000000 INFO @ Mon, 29 Jun 2020 22:18:57: 18000000 INFO @ Mon, 29 Jun 2020 22:19:05: 19000000 INFO @ Mon, 29 Jun 2020 22:19:13: 20000000 INFO @ Mon, 29 Jun 2020 22:19:17: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:19:17: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:19:17: #1 total tags in treatment: 20478123 INFO @ Mon, 29 Jun 2020 22:19:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:17: #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 22:19:18: #1 tags after filtering in treatment: 20478123 INFO @ Mon, 29 Jun 2020 22:19:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:18: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:19: #2 number of paired peaks: 86 WARNING @ Mon, 29 Jun 2020 22:19:19: Too few paired peaks (86) 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 22:19:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.20_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/SRX1084164/SRX1084164.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084164/SRX1084164.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。