Job ID = 6527846 SRX = SRX287859 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:00:03 prefetch.2.10.7: 1) Downloading 'SRR870048'... 2020-06-29T14:00:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:04:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:04:07 prefetch.2.10.7: 1) 'SRR870048' was downloaded successfully Read 19509379 spots for SRR870048/SRR870048.sra Written 19509379 spots for SRR870048/SRR870048.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: 00:06:28 19509379 reads; of these: 19509379 (100.00%) were unpaired; of these: 1052886 (5.40%) aligned 0 times 13933402 (71.42%) aligned exactly 1 time 4523091 (23.18%) aligned >1 times 94.60% overall alignment rate Time searching: 00:06:28 Overall time: 00:06:28 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] 1706656 / 18456493 = 0.0925 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 23:21:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.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 23:21:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:21:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:00: 1000000 INFO @ Mon, 29 Jun 2020 23:22:06: 2000000 INFO @ Mon, 29 Jun 2020 23:22:11: 3000000 INFO @ Mon, 29 Jun 2020 23:22:17: 4000000 INFO @ Mon, 29 Jun 2020 23:22:22: 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 23:22:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.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 23:22:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:28: 6000000 INFO @ Mon, 29 Jun 2020 23:22:32: 1000000 INFO @ Mon, 29 Jun 2020 23:22:34: 7000000 INFO @ Mon, 29 Jun 2020 23:22:38: 2000000 INFO @ Mon, 29 Jun 2020 23:22:40: 8000000 INFO @ Mon, 29 Jun 2020 23:22:45: 3000000 INFO @ Mon, 29 Jun 2020 23:22:46: 9000000 INFO @ Mon, 29 Jun 2020 23:22:52: 10000000 INFO @ Mon, 29 Jun 2020 23:22:52: 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 23:22:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.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 23:22:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:58: 11000000 INFO @ Mon, 29 Jun 2020 23:22:59: 5000000 INFO @ Mon, 29 Jun 2020 23:23:01: 1000000 INFO @ Mon, 29 Jun 2020 23:23:04: 12000000 INFO @ Mon, 29 Jun 2020 23:23:06: 6000000 INFO @ Mon, 29 Jun 2020 23:23:07: 2000000 INFO @ Mon, 29 Jun 2020 23:23:10: 13000000 INFO @ Mon, 29 Jun 2020 23:23:13: 7000000 INFO @ Mon, 29 Jun 2020 23:23:13: 3000000 INFO @ Mon, 29 Jun 2020 23:23:16: 14000000 INFO @ Mon, 29 Jun 2020 23:23:19: 4000000 INFO @ Mon, 29 Jun 2020 23:23:20: 8000000 INFO @ Mon, 29 Jun 2020 23:23:22: 15000000 INFO @ Mon, 29 Jun 2020 23:23:25: 5000000 INFO @ Mon, 29 Jun 2020 23:23:27: 9000000 INFO @ Mon, 29 Jun 2020 23:23:28: 16000000 INFO @ Mon, 29 Jun 2020 23:23:31: 6000000 INFO @ Mon, 29 Jun 2020 23:23:32: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:23:32: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:23:32: #1 total tags in treatment: 16749837 INFO @ Mon, 29 Jun 2020 23:23:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:23:32: #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 23:23:33: #1 tags after filtering in treatment: 16749837 INFO @ Mon, 29 Jun 2020 23:23:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:23:33: #1 finished! INFO @ Mon, 29 Jun 2020 23:23:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:23:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:23:34: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:23:34: Too few paired peaks (50) 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 23:23:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.05_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/SRX287859/SRX287859.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:23:34: 10000000 INFO @ Mon, 29 Jun 2020 23:23:37: 7000000 INFO @ Mon, 29 Jun 2020 23:23:41: 11000000 INFO @ Mon, 29 Jun 2020 23:23:43: 8000000 INFO @ Mon, 29 Jun 2020 23:23:48: 12000000 INFO @ Mon, 29 Jun 2020 23:23:49: 9000000 INFO @ Mon, 29 Jun 2020 23:23:55: 13000000 INFO @ Mon, 29 Jun 2020 23:23:55: 10000000 INFO @ Mon, 29 Jun 2020 23:24:02: 11000000 INFO @ Mon, 29 Jun 2020 23:24:02: 14000000 INFO @ Mon, 29 Jun 2020 23:24:08: 12000000 INFO @ Mon, 29 Jun 2020 23:24:09: 15000000 INFO @ Mon, 29 Jun 2020 23:24:14: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:24:16: 16000000 INFO @ Mon, 29 Jun 2020 23:24:20: 14000000 INFO @ Mon, 29 Jun 2020 23:24:21: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:24:21: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:24:21: #1 total tags in treatment: 16749837 INFO @ Mon, 29 Jun 2020 23:24:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:24:21: #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 23:24:21: #1 tags after filtering in treatment: 16749837 INFO @ Mon, 29 Jun 2020 23:24:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:24:21: #1 finished! INFO @ Mon, 29 Jun 2020 23:24:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:24:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:24:23: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:24:23: Too few paired peaks (50) 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 23:24:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:24:26: 15000000 INFO @ Mon, 29 Jun 2020 23:24:31: 16000000 INFO @ Mon, 29 Jun 2020 23:24:36: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:24:36: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:24:36: #1 total tags in treatment: 16749837 INFO @ Mon, 29 Jun 2020 23:24:36: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:24:36: #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 23:24:36: #1 tags after filtering in treatment: 16749837 INFO @ Mon, 29 Jun 2020 23:24:36: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:24:36: #1 finished! INFO @ Mon, 29 Jun 2020 23:24:36: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:24:36: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:24:37: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:24:37: Too few paired peaks (50) 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 23:24:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.20_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/SRX287859/SRX287859.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX287859/SRX287859.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。