Job ID = 6528313 SRX = SRX5343133 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:47:59 prefetch.2.10.7: 1) Downloading 'SRR8540833'... 2020-06-29T14:47:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:49:42 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:49:43 prefetch.2.10.7: 'SRR8540833' is valid 2020-06-29T14:49:43 prefetch.2.10.7: 1) 'SRR8540833' was downloaded successfully 2020-06-29T14:49:43 prefetch.2.10.7: 'SRR8540833' has 0 unresolved dependencies Read 19283617 spots for SRR8540833/SRR8540833.sra Written 19283617 spots for SRR8540833/SRR8540833.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: 00:06:05 19283617 reads; of these: 19283617 (100.00%) were unpaired; of these: 1735819 (9.00%) aligned 0 times 14805626 (76.78%) aligned exactly 1 time 2742172 (14.22%) aligned >1 times 91.00% overall alignment rate Time searching: 00:06:05 Overall time: 00:06:05 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] 2993174 / 17547798 = 0.1706 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 00:09:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.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 00:09:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:09:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:09:39: 1000000 INFO @ Tue, 30 Jun 2020 00:09:45: 2000000 INFO @ Tue, 30 Jun 2020 00:09:51: 3000000 INFO @ Tue, 30 Jun 2020 00:09:57: 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 @ Tue, 30 Jun 2020 00:10:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.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 00:10:02: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:10:02: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:10:04: 5000000 INFO @ Tue, 30 Jun 2020 00:10:09: 1000000 INFO @ Tue, 30 Jun 2020 00:10:11: 6000000 INFO @ Tue, 30 Jun 2020 00:10:16: 2000000 INFO @ Tue, 30 Jun 2020 00:10:18: 7000000 INFO @ Tue, 30 Jun 2020 00:10:24: 3000000 INFO @ Tue, 30 Jun 2020 00:10:25: 8000000 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 00:10:31: 4000000 INFO @ Tue, 30 Jun 2020 00:10:32: 9000000 INFO @ Tue, 30 Jun 2020 00:10:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.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 00:10:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:10:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:10:38: 5000000 INFO @ Tue, 30 Jun 2020 00:10:39: 10000000 INFO @ Tue, 30 Jun 2020 00:10:40: 1000000 INFO @ Tue, 30 Jun 2020 00:10:46: 6000000 INFO @ Tue, 30 Jun 2020 00:10:47: 11000000 INFO @ Tue, 30 Jun 2020 00:10:48: 2000000 INFO @ Tue, 30 Jun 2020 00:10:54: 7000000 INFO @ Tue, 30 Jun 2020 00:10:54: 12000000 INFO @ Tue, 30 Jun 2020 00:10:56: 3000000 INFO @ Tue, 30 Jun 2020 00:11:01: 8000000 INFO @ Tue, 30 Jun 2020 00:11:01: 13000000 INFO @ Tue, 30 Jun 2020 00:11:03: 4000000 INFO @ Tue, 30 Jun 2020 00:11:09: 9000000 INFO @ Tue, 30 Jun 2020 00:11:09: 14000000 INFO @ Tue, 30 Jun 2020 00:11:11: 5000000 INFO @ Tue, 30 Jun 2020 00:11:13: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:11:13: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:11:13: #1 total tags in treatment: 14554624 INFO @ Tue, 30 Jun 2020 00:11:13: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:11:13: #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 00:11:13: #1 tags after filtering in treatment: 14554624 INFO @ Tue, 30 Jun 2020 00:11:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:11:13: #1 finished! INFO @ Tue, 30 Jun 2020 00:11:13: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:11:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:11:14: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:11:14: Too few paired peaks (53) 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 00:11:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.05_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/SRX5343133/SRX5343133.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:11:16: 10000000 INFO @ Tue, 30 Jun 2020 00:11:18: 6000000 INFO @ Tue, 30 Jun 2020 00:11:23: 11000000 INFO @ Tue, 30 Jun 2020 00:11:25: 7000000 INFO @ Tue, 30 Jun 2020 00:11:30: 12000000 INFO @ Tue, 30 Jun 2020 00:11:32: 8000000 INFO @ Tue, 30 Jun 2020 00:11:37: 13000000 INFO @ Tue, 30 Jun 2020 00:11:39: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:11:44: 14000000 INFO @ Tue, 30 Jun 2020 00:11:46: 10000000 INFO @ Tue, 30 Jun 2020 00:11:48: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:11:48: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:11:48: #1 total tags in treatment: 14554624 INFO @ Tue, 30 Jun 2020 00:11:48: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:11:48: #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 00:11:48: #1 tags after filtering in treatment: 14554624 INFO @ Tue, 30 Jun 2020 00:11:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:11:48: #1 finished! INFO @ Tue, 30 Jun 2020 00:11:48: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:11:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:11:49: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:11:49: Too few paired peaks (53) 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 00:11:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.10_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/SRX5343133/SRX5343133.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:11:53: 11000000 INFO @ Tue, 30 Jun 2020 00:11:59: 12000000 INFO @ Tue, 30 Jun 2020 00:12:05: 13000000 INFO @ Tue, 30 Jun 2020 00:12:11: 14000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:12:15: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:12:15: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:12:15: #1 total tags in treatment: 14554624 INFO @ Tue, 30 Jun 2020 00:12:15: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:12:15: #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 00:12:15: #1 tags after filtering in treatment: 14554624 INFO @ Tue, 30 Jun 2020 00:12:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:12:15: #1 finished! INFO @ Tue, 30 Jun 2020 00:12:15: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:12:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:12:16: #2 number of paired peaks: 53 WARNING @ Tue, 30 Jun 2020 00:12:16: Too few paired peaks (53) 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 00:12:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.20_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/SRX5343133/SRX5343133.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343133/SRX5343133.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling