Job ID = 14520566 SRX = SRX11781061 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:22:21 prefetch.2.10.7: 1) Downloading 'SRR15481004'... 2022-01-15T10:22:21 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:23:08 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:23:08 prefetch.2.10.7: 1) 'SRR15481004' was downloaded successfully 2022-01-15T10:23:08 prefetch.2.10.7: 'SRR15481004' has 0 unresolved dependencies Read 9007536 spots for SRR15481004/SRR15481004.sra Written 9007536 spots for SRR15481004/SRR15481004.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: 00:08:15 9007536 reads; of these: 9007536 (100.00%) were paired; of these: 1339743 (14.87%) aligned concordantly 0 times 5424702 (60.22%) aligned concordantly exactly 1 time 2243091 (24.90%) aligned concordantly >1 times ---- 1339743 pairs aligned concordantly 0 times; of these: 224907 (16.79%) aligned discordantly 1 time ---- 1114836 pairs aligned 0 times concordantly or discordantly; of these: 2229672 mates make up the pairs; of these: 1494949 (67.05%) aligned 0 times 458726 (20.57%) aligned exactly 1 time 275997 (12.38%) aligned >1 times 91.70% overall alignment rate Time searching: 00:08:15 Overall time: 00:08:15 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 857835 / 7845782 = 0.1093 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:38:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 19:38:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:38:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:38:16: 1000000 INFO @ Sat, 15 Jan 2022 19:38:21: 2000000 INFO @ Sat, 15 Jan 2022 19:38:26: 3000000 INFO @ Sat, 15 Jan 2022 19:38:31: 4000000 INFO @ Sat, 15 Jan 2022 19:38:36: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:38:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 19:38:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:38:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:38:41: 6000000 INFO @ Sat, 15 Jan 2022 19:38:46: 1000000 INFO @ Sat, 15 Jan 2022 19:38:46: 7000000 INFO @ Sat, 15 Jan 2022 19:38:52: 2000000 INFO @ Sat, 15 Jan 2022 19:38:52: 8000000 INFO @ Sat, 15 Jan 2022 19:38:57: 3000000 INFO @ Sat, 15 Jan 2022 19:38:58: 9000000 INFO @ Sat, 15 Jan 2022 19:39:03: 4000000 INFO @ Sat, 15 Jan 2022 19:39:04: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 19:39:09: 5000000 INFO @ Sat, 15 Jan 2022 19:39:09: 11000000 INFO @ Sat, 15 Jan 2022 19:39:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 15 Jan 2022 19:39:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:39:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:39:15: 6000000 INFO @ Sat, 15 Jan 2022 19:39:15: 12000000 INFO @ Sat, 15 Jan 2022 19:39:17: 1000000 INFO @ Sat, 15 Jan 2022 19:39:21: 7000000 INFO @ Sat, 15 Jan 2022 19:39:21: 13000000 INFO @ Sat, 15 Jan 2022 19:39:24: 2000000 INFO @ Sat, 15 Jan 2022 19:39:26: 8000000 INFO @ Sat, 15 Jan 2022 19:39:27: 14000000 INFO @ Sat, 15 Jan 2022 19:39:31: 3000000 INFO @ Sat, 15 Jan 2022 19:39:32: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:39:32: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:39:32: #1 total tags in treatment: 6820879 INFO @ Sat, 15 Jan 2022 19:39:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:39:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:39:32: #1 tags after filtering in treatment: 4553862 INFO @ Sat, 15 Jan 2022 19:39:32: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 19:39:32: #1 finished! INFO @ Sat, 15 Jan 2022 19:39:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:39:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:39:32: #2 number of paired peaks: 54 WARNING @ Sat, 15 Jan 2022 19:39:32: Too few paired peaks (54) 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 @ Sat, 15 Jan 2022 19:39:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.05_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/sacCer3/SRX11781061/SRX11781061.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:39:32: 9000000 INFO @ Sat, 15 Jan 2022 19:39:38: 4000000 INFO @ Sat, 15 Jan 2022 19:39:38: 10000000 INFO @ Sat, 15 Jan 2022 19:39:44: 11000000 INFO @ Sat, 15 Jan 2022 19:39:45: 5000000 INFO @ Sat, 15 Jan 2022 19:39:51: 12000000 INFO @ Sat, 15 Jan 2022 19:39:52: 6000000 INFO @ Sat, 15 Jan 2022 19:39:56: 13000000 INFO @ Sat, 15 Jan 2022 19:39:58: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:40:02: 14000000 INFO @ Sat, 15 Jan 2022 19:40:05: 8000000 INFO @ Sat, 15 Jan 2022 19:40:07: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:40:07: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:40:07: #1 total tags in treatment: 6820879 INFO @ Sat, 15 Jan 2022 19:40:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:40:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:40:07: #1 tags after filtering in treatment: 4553862 INFO @ Sat, 15 Jan 2022 19:40:07: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 19:40:07: #1 finished! INFO @ Sat, 15 Jan 2022 19:40:07: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:40:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:40:07: #2 number of paired peaks: 54 WARNING @ Sat, 15 Jan 2022 19:40:07: Too few paired peaks (54) 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 @ Sat, 15 Jan 2022 19:40:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.10_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/sacCer3/SRX11781061/SRX11781061.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:40:12: 9000000 INFO @ Sat, 15 Jan 2022 19:40:19: 10000000 INFO @ Sat, 15 Jan 2022 19:40:25: 11000000 INFO @ Sat, 15 Jan 2022 19:40:32: 12000000 INFO @ Sat, 15 Jan 2022 19:40:38: 13000000 INFO @ Sat, 15 Jan 2022 19:40:45: 14000000 INFO @ Sat, 15 Jan 2022 19:40:50: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:40:50: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:40:50: #1 total tags in treatment: 6820879 INFO @ Sat, 15 Jan 2022 19:40:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:40:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 19:40:50: #1 tags after filtering in treatment: 4553862 INFO @ Sat, 15 Jan 2022 19:40:50: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 19:40:50: #1 finished! INFO @ Sat, 15 Jan 2022 19:40:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:40:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:40:50: #2 number of paired peaks: 54 WARNING @ Sat, 15 Jan 2022 19:40:50: Too few paired peaks (54) 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 @ Sat, 15 Jan 2022 19:40:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.20_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/sacCer3/SRX11781061/SRX11781061.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781061/SRX11781061.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling