Job ID = 14520511 SRX = SRX11781050 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:15:53 prefetch.2.10.7: 1) Downloading 'SRR15480993'... 2022-01-15T10:15:53 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:16:45 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:16:45 prefetch.2.10.7: 1) 'SRR15480993' was downloaded successfully 2022-01-15T10:16:45 prefetch.2.10.7: 'SRR15480993' has 0 unresolved dependencies Read 10342044 spots for SRR15480993/SRR15480993.sra Written 10342044 spots for SRR15480993/SRR15480993.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: 00:07:15 10342044 reads; of these: 10342044 (100.00%) were paired; of these: 2120153 (20.50%) aligned concordantly 0 times 7967053 (77.04%) aligned concordantly exactly 1 time 254838 (2.46%) aligned concordantly >1 times ---- 2120153 pairs aligned concordantly 0 times; of these: 603793 (28.48%) aligned discordantly 1 time ---- 1516360 pairs aligned 0 times concordantly or discordantly; of these: 3032720 mates make up the pairs; of these: 2197973 (72.48%) aligned 0 times 747051 (24.63%) aligned exactly 1 time 87696 (2.89%) aligned >1 times 89.37% overall alignment rate Time searching: 00:07:15 Overall time: 00:07:15 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] 3809646 / 8766502 = 0.4346 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 19:30:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.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 19:30:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:30:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:30:06: 1000000 INFO @ Sat, 15 Jan 2022 19:30:11: 2000000 INFO @ Sat, 15 Jan 2022 19:30:16: 3000000 INFO @ Sat, 15 Jan 2022 19:30:21: 4000000 INFO @ Sat, 15 Jan 2022 19:30:26: 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 19:30:31: 6000000 INFO @ Sat, 15 Jan 2022 19:30:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.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 19:30:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:30:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:30:36: 7000000 INFO @ Sat, 15 Jan 2022 19:30:36: 1000000 INFO @ Sat, 15 Jan 2022 19:30:41: 8000000 INFO @ Sat, 15 Jan 2022 19:30:42: 2000000 INFO @ Sat, 15 Jan 2022 19:30:47: 9000000 INFO @ Sat, 15 Jan 2022 19:30:47: 3000000 INFO @ Sat, 15 Jan 2022 19:30:52: 10000000 INFO @ Sat, 15 Jan 2022 19:30:52: 4000000 INFO @ Sat, 15 Jan 2022 19:30:57: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:30:57: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:30:57: #1 total tags in treatment: 4766873 INFO @ Sat, 15 Jan 2022 19:30:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:30:57: #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 19:30:57: #1 tags after filtering in treatment: 319860 INFO @ Sat, 15 Jan 2022 19:30:57: #1 Redundant rate of treatment: 0.93 INFO @ Sat, 15 Jan 2022 19:30:57: #1 finished! INFO @ Sat, 15 Jan 2022 19:30:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:30:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:30:57: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 19:30:57: Too few paired peaks (9) 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 19:30:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.05_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/sacCer3/SRX11781050/SRX11781050.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:30:58: 5000000 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 19:31:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.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 19:31:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:31:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:31:03: 6000000 INFO @ Sat, 15 Jan 2022 19:31:08: 1000000 INFO @ Sat, 15 Jan 2022 19:31:09: 7000000 INFO @ Sat, 15 Jan 2022 19:31:14: 2000000 INFO @ Sat, 15 Jan 2022 19:31:14: 8000000 INFO @ Sat, 15 Jan 2022 19:31:20: 9000000 INFO @ Sat, 15 Jan 2022 19:31:21: 3000000 INFO @ Sat, 15 Jan 2022 19:31:26: 10000000 INFO @ Sat, 15 Jan 2022 19:31:28: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:31:31: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:31:31: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:31:31: #1 total tags in treatment: 4766873 INFO @ Sat, 15 Jan 2022 19:31:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:31:31: #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 19:31:31: #1 tags after filtering in treatment: 319860 INFO @ Sat, 15 Jan 2022 19:31:31: #1 Redundant rate of treatment: 0.93 INFO @ Sat, 15 Jan 2022 19:31:31: #1 finished! INFO @ Sat, 15 Jan 2022 19:31:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:31:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:31:31: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 19:31:31: Too few paired peaks (9) 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 19:31:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.10_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/SRX11781050/SRX11781050.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:31:34: 5000000 INFO @ Sat, 15 Jan 2022 19:31:40: 6000000 INFO @ Sat, 15 Jan 2022 19:31:47: 7000000 INFO @ Sat, 15 Jan 2022 19:31:53: 8000000 INFO @ Sat, 15 Jan 2022 19:31:59: 9000000 INFO @ Sat, 15 Jan 2022 19:32:06: 10000000 INFO @ Sat, 15 Jan 2022 19:32:11: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:32:11: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:32:11: #1 total tags in treatment: 4766873 INFO @ Sat, 15 Jan 2022 19:32:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:32:11: #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 19:32:11: #1 tags after filtering in treatment: 319860 INFO @ Sat, 15 Jan 2022 19:32:11: #1 Redundant rate of treatment: 0.93 INFO @ Sat, 15 Jan 2022 19:32:11: #1 finished! INFO @ Sat, 15 Jan 2022 19:32:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:32:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:32:11: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 19:32:11: Too few paired peaks (9) 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 19:32:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.20_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/SRX11781050/SRX11781050.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781050/SRX11781050.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling