Job ID = 6527545 SRX = SRX1084163 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:55:23 prefetch.2.10.7: 1) Downloading 'SRR2088909'... 2020-06-29T12:55:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:59:03 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:59:03 prefetch.2.10.7: 1) 'SRR2088909' was downloaded successfully Read 21865119 spots for SRR2088909/SRR2088909.sra Written 21865119 spots for SRR2088909/SRR2088909.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: 00:06:50 21865119 reads; of these: 21865119 (100.00%) were unpaired; of these: 710488 (3.25%) aligned 0 times 16260074 (74.37%) aligned exactly 1 time 4894557 (22.39%) aligned >1 times 96.75% overall alignment rate Time searching: 00:06:50 Overall time: 00:06:50 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] 1497766 / 21154631 = 0.0708 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 22:17:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.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 22:17:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:17:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:17:20: 1000000 INFO @ Mon, 29 Jun 2020 22:17:26: 2000000 INFO @ Mon, 29 Jun 2020 22:17:32: 3000000 INFO @ Mon, 29 Jun 2020 22:17:38: 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 22:17:43: 5000000 INFO @ Mon, 29 Jun 2020 22:17:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.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 22:17:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:17:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:17:49: 6000000 INFO @ Mon, 29 Jun 2020 22:17:51: 1000000 INFO @ Mon, 29 Jun 2020 22:17:55: 7000000 INFO @ Mon, 29 Jun 2020 22:17:57: 2000000 INFO @ Mon, 29 Jun 2020 22:18:01: 8000000 INFO @ Mon, 29 Jun 2020 22:18:04: 3000000 INFO @ Mon, 29 Jun 2020 22:18:08: 9000000 INFO @ Mon, 29 Jun 2020 22:18:10: 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 22:18:14: 10000000 INFO @ Mon, 29 Jun 2020 22:18:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.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 22:18:15: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:18:15: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:18:16: 5000000 INFO @ Mon, 29 Jun 2020 22:18:20: 11000000 INFO @ Mon, 29 Jun 2020 22:18:22: 1000000 INFO @ Mon, 29 Jun 2020 22:18:23: 6000000 INFO @ Mon, 29 Jun 2020 22:18:27: 12000000 INFO @ Mon, 29 Jun 2020 22:18:30: 2000000 INFO @ Mon, 29 Jun 2020 22:18:30: 7000000 INFO @ Mon, 29 Jun 2020 22:18:34: 13000000 INFO @ Mon, 29 Jun 2020 22:18:37: 8000000 INFO @ Mon, 29 Jun 2020 22:18:37: 3000000 INFO @ Mon, 29 Jun 2020 22:18:42: 14000000 INFO @ Mon, 29 Jun 2020 22:18:44: 9000000 INFO @ Mon, 29 Jun 2020 22:18:45: 4000000 INFO @ Mon, 29 Jun 2020 22:18:49: 15000000 INFO @ Mon, 29 Jun 2020 22:18:51: 10000000 INFO @ Mon, 29 Jun 2020 22:18:53: 5000000 INFO @ Mon, 29 Jun 2020 22:18:56: 16000000 INFO @ Mon, 29 Jun 2020 22:18:57: 11000000 INFO @ Mon, 29 Jun 2020 22:19:00: 6000000 INFO @ Mon, 29 Jun 2020 22:19:03: 17000000 INFO @ Mon, 29 Jun 2020 22:19:04: 12000000 INFO @ Mon, 29 Jun 2020 22:19:07: 7000000 INFO @ Mon, 29 Jun 2020 22:19:11: 18000000 INFO @ Mon, 29 Jun 2020 22:19:11: 13000000 INFO @ Mon, 29 Jun 2020 22:19:15: 8000000 INFO @ Mon, 29 Jun 2020 22:19:18: 14000000 INFO @ Mon, 29 Jun 2020 22:19:18: 19000000 INFO @ Mon, 29 Jun 2020 22:19:22: 9000000 INFO @ Mon, 29 Jun 2020 22:19:23: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:19:23: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:19:23: #1 total tags in treatment: 19656865 INFO @ Mon, 29 Jun 2020 22:19:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:23: #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 22:19:23: #1 tags after filtering in treatment: 19656865 INFO @ Mon, 29 Jun 2020 22:19:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:23: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:23: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:24: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 22:19:24: Too few paired peaks (98) 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 22:19:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.05_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/SRX1084163/SRX1084163.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:19:25: 15000000 INFO @ Mon, 29 Jun 2020 22:19:30: 10000000 INFO @ Mon, 29 Jun 2020 22:19:31: 16000000 INFO @ Mon, 29 Jun 2020 22:19:37: 11000000 INFO @ Mon, 29 Jun 2020 22:19:38: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:19:45: 12000000 INFO @ Mon, 29 Jun 2020 22:19:45: 18000000 INFO @ Mon, 29 Jun 2020 22:19:52: 19000000 INFO @ Mon, 29 Jun 2020 22:19:52: 13000000 INFO @ Mon, 29 Jun 2020 22:19:56: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:19:56: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:19:56: #1 total tags in treatment: 19656865 INFO @ Mon, 29 Jun 2020 22:19:56: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:19:56: #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 22:19:57: #1 tags after filtering in treatment: 19656865 INFO @ Mon, 29 Jun 2020 22:19:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:19:57: #1 finished! INFO @ Mon, 29 Jun 2020 22:19:57: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:19:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:19:58: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 22:19:58: Too few paired peaks (98) 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 22:19:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.10_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/SRX1084163/SRX1084163.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:19:59: 14000000 INFO @ Mon, 29 Jun 2020 22:20:06: 15000000 INFO @ Mon, 29 Jun 2020 22:20:13: 16000000 INFO @ Mon, 29 Jun 2020 22:20:20: 17000000 INFO @ Mon, 29 Jun 2020 22:20:27: 18000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 22:20:34: 19000000 INFO @ Mon, 29 Jun 2020 22:20:38: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:20:38: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:20:38: #1 total tags in treatment: 19656865 INFO @ Mon, 29 Jun 2020 22:20:38: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:20:38: #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 22:20:39: #1 tags after filtering in treatment: 19656865 INFO @ Mon, 29 Jun 2020 22:20:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:20:39: #1 finished! INFO @ Mon, 29 Jun 2020 22:20:39: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:20:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:20:40: #2 number of paired peaks: 98 WARNING @ Mon, 29 Jun 2020 22:20:40: Too few paired peaks (98) 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 22:20:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.20_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/SRX1084163/SRX1084163.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084163/SRX1084163.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling