Job ID = 6527507 SRX = SRX041387 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:35:26 prefetch.2.10.7: 1) Downloading 'SRR099117'... 2020-06-29T12:35:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:37:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:37:18 prefetch.2.10.7: 'SRR099117' is valid 2020-06-29T12:37:18 prefetch.2.10.7: 1) 'SRR099117' was downloaded successfully Read 21972089 spots for SRR099117/SRR099117.sra Written 21972089 spots for SRR099117/SRR099117.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: 00:05:30 21972089 reads; of these: 21972089 (100.00%) were unpaired; of these: 773413 (3.52%) aligned 0 times 16700021 (76.01%) aligned exactly 1 time 4498655 (20.47%) aligned >1 times 96.48% overall alignment rate Time searching: 00:05:30 Overall time: 00:05:30 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] 3168780 / 21198676 = 0.1495 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 21:52:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.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 21:52:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:52:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:52:09: 1000000 INFO @ Mon, 29 Jun 2020 21:52:13: 2000000 INFO @ Mon, 29 Jun 2020 21:52:18: 3000000 INFO @ Mon, 29 Jun 2020 21:52:22: 4000000 INFO @ Mon, 29 Jun 2020 21:52:27: 5000000 INFO @ Mon, 29 Jun 2020 21:52:31: 6000000 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 21:52:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.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 21:52:33: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:52:33: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:52:36: 7000000 INFO @ Mon, 29 Jun 2020 21:52:38: 1000000 INFO @ Mon, 29 Jun 2020 21:52:40: 8000000 INFO @ Mon, 29 Jun 2020 21:52:43: 2000000 INFO @ Mon, 29 Jun 2020 21:52:45: 9000000 INFO @ Mon, 29 Jun 2020 21:52:48: 3000000 INFO @ Mon, 29 Jun 2020 21:52:49: 10000000 INFO @ Mon, 29 Jun 2020 21:52:53: 4000000 INFO @ Mon, 29 Jun 2020 21:52:54: 11000000 INFO @ Mon, 29 Jun 2020 21:52:58: 5000000 INFO @ Mon, 29 Jun 2020 21:52:59: 12000000 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 21:53:03: 13000000 INFO @ Mon, 29 Jun 2020 21:53:03: 6000000 INFO @ Mon, 29 Jun 2020 21:53:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.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 21:53:03: #1 read tag files... INFO @ Mon, 29 Jun 2020 21:53:03: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 21:53:08: 14000000 INFO @ Mon, 29 Jun 2020 21:53:08: 7000000 INFO @ Mon, 29 Jun 2020 21:53:09: 1000000 INFO @ Mon, 29 Jun 2020 21:53:13: 15000000 INFO @ Mon, 29 Jun 2020 21:53:13: 8000000 INFO @ Mon, 29 Jun 2020 21:53:14: 2000000 INFO @ Mon, 29 Jun 2020 21:53:17: 16000000 INFO @ Mon, 29 Jun 2020 21:53:18: 9000000 INFO @ Mon, 29 Jun 2020 21:53:19: 3000000 INFO @ Mon, 29 Jun 2020 21:53:22: 17000000 INFO @ Mon, 29 Jun 2020 21:53:23: 10000000 INFO @ Mon, 29 Jun 2020 21:53:24: 4000000 INFO @ Mon, 29 Jun 2020 21:53:27: 18000000 INFO @ Mon, 29 Jun 2020 21:53:27: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:53:27: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:53:27: #1 total tags in treatment: 18029896 INFO @ Mon, 29 Jun 2020 21:53:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:53:27: #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 21:53:27: #1 tags after filtering in treatment: 18029896 INFO @ Mon, 29 Jun 2020 21:53:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:53:27: #1 finished! INFO @ Mon, 29 Jun 2020 21:53:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:53:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:53:28: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 21:53:28: Too few paired peaks (70) 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 21:53:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.05_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/SRX041387/SRX041387.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:53:28: 11000000 INFO @ Mon, 29 Jun 2020 21:53:29: 5000000 INFO @ Mon, 29 Jun 2020 21:53:33: 12000000 INFO @ Mon, 29 Jun 2020 21:53:34: 6000000 INFO @ Mon, 29 Jun 2020 21:53:38: 13000000 INFO @ Mon, 29 Jun 2020 21:53:39: 7000000 INFO @ Mon, 29 Jun 2020 21:53:44: 14000000 INFO @ Mon, 29 Jun 2020 21:53:45: 8000000 INFO @ Mon, 29 Jun 2020 21:53:49: 15000000 INFO @ Mon, 29 Jun 2020 21:53:50: 9000000 INFO @ Mon, 29 Jun 2020 21:53:54: 16000000 INFO @ Mon, 29 Jun 2020 21:53:55: 10000000 INFO @ Mon, 29 Jun 2020 21:53:59: 17000000 INFO @ Mon, 29 Jun 2020 21:54:00: 11000000 INFO @ Mon, 29 Jun 2020 21:54:04: 18000000 INFO @ Mon, 29 Jun 2020 21:54:05: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:54:05: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:54:05: #1 total tags in treatment: 18029896 INFO @ Mon, 29 Jun 2020 21:54:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:54:05: #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 21:54:05: #1 tags after filtering in treatment: 18029896 INFO @ Mon, 29 Jun 2020 21:54:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:54:05: #1 finished! INFO @ Mon, 29 Jun 2020 21:54:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:54:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:54:05: 12000000 INFO @ Mon, 29 Jun 2020 21:54:06: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 21:54:06: Too few paired peaks (70) 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 21:54:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.10_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/SRX041387/SRX041387.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 21:54:10: 13000000 INFO @ Mon, 29 Jun 2020 21:54:16: 14000000 INFO @ Mon, 29 Jun 2020 21:54:21: 15000000 INFO @ Mon, 29 Jun 2020 21:54:26: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 21:54:31: 17000000 INFO @ Mon, 29 Jun 2020 21:54:36: 18000000 INFO @ Mon, 29 Jun 2020 21:54:37: #1 tag size is determined as 36 bps INFO @ Mon, 29 Jun 2020 21:54:37: #1 tag size = 36 INFO @ Mon, 29 Jun 2020 21:54:37: #1 total tags in treatment: 18029896 INFO @ Mon, 29 Jun 2020 21:54:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 21:54:37: #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 21:54:37: #1 tags after filtering in treatment: 18029896 INFO @ Mon, 29 Jun 2020 21:54:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 21:54:37: #1 finished! INFO @ Mon, 29 Jun 2020 21:54:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 21:54:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 21:54:38: #2 number of paired peaks: 70 WARNING @ Mon, 29 Jun 2020 21:54:38: Too few paired peaks (70) 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 21:54:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.20_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/SRX041387/SRX041387.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX041387/SRX041387.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。