Job ID = 14522132 SRX = SRX9786307 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8864234 spots for SRR13362171/SRR13362171.sra Written 8864234 spots for SRR13362171/SRR13362171.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: 00:07:36 8864234 reads; of these: 8864234 (100.00%) were paired; of these: 1342506 (15.15%) aligned concordantly 0 times 6671522 (75.26%) aligned concordantly exactly 1 time 850206 (9.59%) aligned concordantly >1 times ---- 1342506 pairs aligned concordantly 0 times; of these: 101488 (7.56%) aligned discordantly 1 time ---- 1241018 pairs aligned 0 times concordantly or discordantly; of these: 2482036 mates make up the pairs; of these: 1550452 (62.47%) aligned 0 times 794400 (32.01%) aligned exactly 1 time 137184 (5.53%) aligned >1 times 91.25% overall alignment rate Time searching: 00:07:36 Overall time: 00:07:36 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] 324859 / 7622430 = 0.0426 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 22:29:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.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 22:29:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:29:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:29:14: 1000000 INFO @ Sat, 15 Jan 2022 22:29:20: 2000000 INFO @ Sat, 15 Jan 2022 22:29:26: 3000000 INFO @ Sat, 15 Jan 2022 22:29:31: 4000000 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 22:29:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.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 22:29:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:29:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:29:37: 5000000 INFO @ Sat, 15 Jan 2022 22:29:44: 6000000 INFO @ Sat, 15 Jan 2022 22:29:44: 1000000 INFO @ Sat, 15 Jan 2022 22:29:50: 7000000 INFO @ Sat, 15 Jan 2022 22:29:50: 2000000 INFO @ Sat, 15 Jan 2022 22:29:56: 3000000 INFO @ Sat, 15 Jan 2022 22:29:56: 8000000 INFO @ Sat, 15 Jan 2022 22:30:02: 4000000 INFO @ Sat, 15 Jan 2022 22:30:03: 9000000 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 22:30:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.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 22:30:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:30:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:30:08: 5000000 INFO @ Sat, 15 Jan 2022 22:30:10: 10000000 INFO @ Sat, 15 Jan 2022 22:30:14: 1000000 INFO @ Sat, 15 Jan 2022 22:30:15: 6000000 INFO @ Sat, 15 Jan 2022 22:30:16: 11000000 INFO @ Sat, 15 Jan 2022 22:30:20: 2000000 INFO @ Sat, 15 Jan 2022 22:30:21: 7000000 INFO @ Sat, 15 Jan 2022 22:30:23: 12000000 INFO @ Sat, 15 Jan 2022 22:30:27: 3000000 INFO @ Sat, 15 Jan 2022 22:30:28: 8000000 INFO @ Sat, 15 Jan 2022 22:30:30: 13000000 INFO @ Sat, 15 Jan 2022 22:30:33: 4000000 INFO @ Sat, 15 Jan 2022 22:30:34: 9000000 INFO @ Sat, 15 Jan 2022 22:30:37: 14000000 INFO @ Sat, 15 Jan 2022 22:30:40: 5000000 INFO @ Sat, 15 Jan 2022 22:30:41: 10000000 INFO @ Sat, 15 Jan 2022 22:30:43: 15000000 INFO @ Sat, 15 Jan 2022 22:30:46: 6000000 INFO @ Sat, 15 Jan 2022 22:30:47: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:30:47: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:30:47: #1 total tags in treatment: 7198716 INFO @ Sat, 15 Jan 2022 22:30:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:30:47: #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 22:30:47: #1 tags after filtering in treatment: 4768590 INFO @ Sat, 15 Jan 2022 22:30:47: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 22:30:47: #1 finished! INFO @ Sat, 15 Jan 2022 22:30:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:30:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:30:47: #2 number of paired peaks: 94 WARNING @ Sat, 15 Jan 2022 22:30:47: Too few paired peaks (94) 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 22:30:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.05_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/SRX9786307/SRX9786307.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:30:48: 11000000 INFO @ Sat, 15 Jan 2022 22:30:53: 7000000 INFO @ Sat, 15 Jan 2022 22:30:54: 12000000 INFO @ Sat, 15 Jan 2022 22:31:00: 8000000 INFO @ Sat, 15 Jan 2022 22:31:00: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:31:06: 9000000 INFO @ Sat, 15 Jan 2022 22:31:06: 14000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:31:12: 15000000 INFO @ Sat, 15 Jan 2022 22:31:13: 10000000 INFO @ Sat, 15 Jan 2022 22:31:16: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:31:16: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:31:16: #1 total tags in treatment: 7198716 INFO @ Sat, 15 Jan 2022 22:31:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:31:16: #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 22:31:16: #1 tags after filtering in treatment: 4768590 INFO @ Sat, 15 Jan 2022 22:31:16: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 22:31:16: #1 finished! INFO @ Sat, 15 Jan 2022 22:31:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:31:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:31:16: #2 number of paired peaks: 94 WARNING @ Sat, 15 Jan 2022 22:31:16: Too few paired peaks (94) 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 22:31:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.10_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/sacCer3/SRX9786307/SRX9786307.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:31:19: 11000000 INFO @ Sat, 15 Jan 2022 22:31:25: 12000000 INFO @ Sat, 15 Jan 2022 22:31:32: 13000000 INFO @ Sat, 15 Jan 2022 22:31:38: 14000000 INFO @ Sat, 15 Jan 2022 22:31:44: 15000000 INFO @ Sat, 15 Jan 2022 22:31:47: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 22:31:47: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 22:31:47: #1 total tags in treatment: 7198716 INFO @ Sat, 15 Jan 2022 22:31:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:31:47: #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 22:31:47: #1 tags after filtering in treatment: 4768590 INFO @ Sat, 15 Jan 2022 22:31:47: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 22:31:47: #1 finished! INFO @ Sat, 15 Jan 2022 22:31:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:31:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:31:48: #2 number of paired peaks: 94 WARNING @ Sat, 15 Jan 2022 22:31:48: Too few paired peaks (94) 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 22:31:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.20_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/SRX9786307/SRX9786307.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786307/SRX9786307.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling