Job ID = 6527568 SRX = SRX111804 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:00:57 prefetch.2.10.7: 1) Downloading 'SRR390262'... 2020-06-29T13:00:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:03:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:03:22 prefetch.2.10.7: 1) 'SRR390262' was downloaded successfully Read 21167708 spots for SRR390262/SRR390262.sra Written 21167708 spots for SRR390262/SRR390262.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:24 21167708 reads; of these: 21167708 (100.00%) were unpaired; of these: 358010 (1.69%) aligned 0 times 14614537 (69.04%) aligned exactly 1 time 6195161 (29.27%) aligned >1 times 98.31% overall alignment rate Time searching: 00:07:25 Overall time: 00:07:25 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 8 files... [bam_rmdupse_core] 4483504 / 20809698 = 0.2155 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 22:24:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.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 22:24:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:09: 1000000 INFO @ Mon, 29 Jun 2020 22:24:15: 2000000 INFO @ Mon, 29 Jun 2020 22:24:20: 3000000 INFO @ Mon, 29 Jun 2020 22:24:25: 4000000 INFO @ Mon, 29 Jun 2020 22:24:30: 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 22:24:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.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 22:24:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:35: 6000000 INFO @ Mon, 29 Jun 2020 22:24:39: 1000000 INFO @ Mon, 29 Jun 2020 22:24:41: 7000000 INFO @ Mon, 29 Jun 2020 22:24:45: 2000000 INFO @ Mon, 29 Jun 2020 22:24:46: 8000000 INFO @ Mon, 29 Jun 2020 22:24:50: 3000000 INFO @ Mon, 29 Jun 2020 22:24:51: 9000000 INFO @ Mon, 29 Jun 2020 22:24:55: 4000000 INFO @ Mon, 29 Jun 2020 22:24:57: 10000000 INFO @ Mon, 29 Jun 2020 22:25:00: 5000000 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 22:25:03: 11000000 INFO @ Mon, 29 Jun 2020 22:25:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.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 22:25:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:25:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:25:05: 6000000 INFO @ Mon, 29 Jun 2020 22:25:08: 12000000 INFO @ Mon, 29 Jun 2020 22:25:10: 1000000 INFO @ Mon, 29 Jun 2020 22:25:11: 7000000 INFO @ Mon, 29 Jun 2020 22:25:14: 13000000 INFO @ Mon, 29 Jun 2020 22:25:16: 8000000 INFO @ Mon, 29 Jun 2020 22:25:16: 2000000 INFO @ Mon, 29 Jun 2020 22:25:20: 14000000 INFO @ Mon, 29 Jun 2020 22:25:21: 9000000 INFO @ Mon, 29 Jun 2020 22:25:22: 3000000 INFO @ Mon, 29 Jun 2020 22:25:26: 15000000 INFO @ Mon, 29 Jun 2020 22:25:26: 10000000 INFO @ Mon, 29 Jun 2020 22:25:28: 4000000 INFO @ Mon, 29 Jun 2020 22:25:32: 11000000 INFO @ Mon, 29 Jun 2020 22:25:32: 16000000 INFO @ Mon, 29 Jun 2020 22:25:34: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:25:34: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:25:34: #1 total tags in treatment: 16326194 INFO @ Mon, 29 Jun 2020 22:25:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:25:34: #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 22:25:34: 5000000 INFO @ Mon, 29 Jun 2020 22:25:34: #1 tags after filtering in treatment: 16326194 INFO @ Mon, 29 Jun 2020 22:25:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:25:34: #1 finished! INFO @ Mon, 29 Jun 2020 22:25:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:25:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:25:35: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:25:35: 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 22:25:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.05_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/SRX111804/SRX111804.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:25:37: 12000000 INFO @ Mon, 29 Jun 2020 22:25:39: 6000000 INFO @ Mon, 29 Jun 2020 22:25:42: 13000000 INFO @ Mon, 29 Jun 2020 22:25:45: 7000000 INFO @ Mon, 29 Jun 2020 22:25:47: 14000000 INFO @ Mon, 29 Jun 2020 22:25:50: 8000000 INFO @ Mon, 29 Jun 2020 22:25:52: 15000000 INFO @ Mon, 29 Jun 2020 22:25:56: 9000000 INFO @ Mon, 29 Jun 2020 22:25:58: 16000000 INFO @ Mon, 29 Jun 2020 22:25:59: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:25:59: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:25:59: #1 total tags in treatment: 16326194 INFO @ Mon, 29 Jun 2020 22:25:59: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:25:59: #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 22:26:00: #1 tags after filtering in treatment: 16326194 INFO @ Mon, 29 Jun 2020 22:26:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:26:00: #1 finished! INFO @ Mon, 29 Jun 2020 22:26:00: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:26:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:26:01: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:26:01: 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 22:26:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.10_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/SRX111804/SRX111804.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:26:01: 10000000 INFO @ Mon, 29 Jun 2020 22:26:06: 11000000 INFO @ Mon, 29 Jun 2020 22:26:12: 12000000 INFO @ Mon, 29 Jun 2020 22:26:17: 13000000 INFO @ Mon, 29 Jun 2020 22:26:22: 14000000 INFO @ Mon, 29 Jun 2020 22:26:28: 15000000 INFO @ Mon, 29 Jun 2020 22:26:33: 16000000 INFO @ Mon, 29 Jun 2020 22:26:35: #1 tag size is determined as 44 bps INFO @ Mon, 29 Jun 2020 22:26:35: #1 tag size = 44 INFO @ Mon, 29 Jun 2020 22:26:35: #1 total tags in treatment: 16326194 INFO @ Mon, 29 Jun 2020 22:26:35: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:26:35: #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 22:26:35: #1 tags after filtering in treatment: 16326194 INFO @ Mon, 29 Jun 2020 22:26:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:26:35: #1 finished! INFO @ Mon, 29 Jun 2020 22:26:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:26:35: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:26:36: #2 number of paired peaks: 55 WARNING @ Mon, 29 Jun 2020 22:26:36: 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 22:26:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.20_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/SRX111804/SRX111804.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX111804/SRX111804.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。