Job ID = 6528442 SRX = SRX6468487 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:24:07 prefetch.2.10.7: 1) Downloading 'SRR9710573'... 2020-06-29T15:24:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:28:31 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:28:31 prefetch.2.10.7: 1) 'SRR9710573' was downloaded successfully Read 29279871 spots for SRR9710573/SRR9710573.sra Written 29279871 spots for SRR9710573/SRR9710573.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: 00:07:20 29279871 reads; of these: 29279871 (100.00%) were unpaired; of these: 3639822 (12.43%) aligned 0 times 19627041 (67.03%) aligned exactly 1 time 6013008 (20.54%) aligned >1 times 87.57% overall alignment rate Time searching: 00:07:21 Overall time: 00:07:21 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] 11413877 / 25640049 = 0.4452 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 @ Tue, 30 Jun 2020 00:50:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.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 @ Tue, 30 Jun 2020 00:50:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:50:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:50:33: 1000000 INFO @ Tue, 30 Jun 2020 00:50:38: 2000000 INFO @ Tue, 30 Jun 2020 00:50:43: 3000000 INFO @ Tue, 30 Jun 2020 00:50:49: 4000000 INFO @ Tue, 30 Jun 2020 00:50:54: 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 @ Tue, 30 Jun 2020 00:50:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.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 @ Tue, 30 Jun 2020 00:50:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:50:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:51:00: 6000000 INFO @ Tue, 30 Jun 2020 00:51:04: 1000000 INFO @ Tue, 30 Jun 2020 00:51:05: 7000000 INFO @ Tue, 30 Jun 2020 00:51:10: 8000000 INFO @ Tue, 30 Jun 2020 00:51:10: 2000000 INFO @ Tue, 30 Jun 2020 00:51:16: 9000000 INFO @ Tue, 30 Jun 2020 00:51:16: 3000000 INFO @ Tue, 30 Jun 2020 00:51:21: 10000000 INFO @ Tue, 30 Jun 2020 00:51:22: 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 @ Tue, 30 Jun 2020 00:51:27: 11000000 INFO @ Tue, 30 Jun 2020 00:51:27: 5000000 INFO @ Tue, 30 Jun 2020 00:51:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.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 @ Tue, 30 Jun 2020 00:51:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:51:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:51:33: 12000000 INFO @ Tue, 30 Jun 2020 00:51:33: 6000000 INFO @ Tue, 30 Jun 2020 00:51:33: 1000000 INFO @ Tue, 30 Jun 2020 00:51:39: 7000000 INFO @ Tue, 30 Jun 2020 00:51:39: 13000000 INFO @ Tue, 30 Jun 2020 00:51:39: 2000000 INFO @ Tue, 30 Jun 2020 00:51:44: 8000000 INFO @ Tue, 30 Jun 2020 00:51:45: 3000000 INFO @ Tue, 30 Jun 2020 00:51:45: 14000000 INFO @ Tue, 30 Jun 2020 00:51:47: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:51:47: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:51:47: #1 total tags in treatment: 14226172 INFO @ Tue, 30 Jun 2020 00:51:47: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:51:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:51:47: #1 tags after filtering in treatment: 14226172 INFO @ Tue, 30 Jun 2020 00:51:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:51:47: #1 finished! INFO @ Tue, 30 Jun 2020 00:51:47: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:51:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:51:48: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 00:51:48: Too few paired peaks (12) 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 @ Tue, 30 Jun 2020 00:51:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.05_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/SRX6468487/SRX6468487.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:51:50: 9000000 INFO @ Tue, 30 Jun 2020 00:51:51: 4000000 INFO @ Tue, 30 Jun 2020 00:51:56: 10000000 INFO @ Tue, 30 Jun 2020 00:51:56: 5000000 INFO @ Tue, 30 Jun 2020 00:52:01: 6000000 INFO @ Tue, 30 Jun 2020 00:52:02: 11000000 INFO @ Tue, 30 Jun 2020 00:52:07: 7000000 INFO @ Tue, 30 Jun 2020 00:52:07: 12000000 INFO @ Tue, 30 Jun 2020 00:52:12: 8000000 INFO @ Tue, 30 Jun 2020 00:52:13: 13000000 INFO @ Tue, 30 Jun 2020 00:52:18: 9000000 INFO @ Tue, 30 Jun 2020 00:52:19: 14000000 INFO @ Tue, 30 Jun 2020 00:52:21: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:52:21: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:52:21: #1 total tags in treatment: 14226172 INFO @ Tue, 30 Jun 2020 00:52:21: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:52:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:52:21: #1 tags after filtering in treatment: 14226172 INFO @ Tue, 30 Jun 2020 00:52:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:52:21: #1 finished! INFO @ Tue, 30 Jun 2020 00:52:21: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:52:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:52:22: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 00:52:22: Too few paired peaks (12) 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 @ Tue, 30 Jun 2020 00:52:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.10_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/SRX6468487/SRX6468487.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:52:23: 10000000 INFO @ Tue, 30 Jun 2020 00:52:29: 11000000 INFO @ Tue, 30 Jun 2020 00:52:34: 12000000 INFO @ Tue, 30 Jun 2020 00:52:40: 13000000 INFO @ Tue, 30 Jun 2020 00:52:45: 14000000 INFO @ Tue, 30 Jun 2020 00:52:47: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:52:47: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:52:47: #1 total tags in treatment: 14226172 INFO @ Tue, 30 Jun 2020 00:52:47: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:52:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:52:47: #1 tags after filtering in treatment: 14226172 INFO @ Tue, 30 Jun 2020 00:52:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:52:47: #1 finished! INFO @ Tue, 30 Jun 2020 00:52:47: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:52:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:52:48: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 00:52:48: Too few paired peaks (12) 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 @ Tue, 30 Jun 2020 00:52:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.20_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/SRX6468487/SRX6468487.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6468487/SRX6468487.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。