Job ID = 14522035 SRX = SRX10602364 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T13:01:05 prefetch.2.10.7: 1) Downloading 'SRR14239532'... 2022-01-15T13:01:05 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T13:01:20 prefetch.2.10.7: HTTPS download succeed 2022-01-15T13:01:21 prefetch.2.10.7: 'SRR14239532' is valid 2022-01-15T13:01:21 prefetch.2.10.7: 1) 'SRR14239532' was downloaded successfully 2022-01-15T13:01:21 prefetch.2.10.7: 'SRR14239532' has 0 unresolved dependencies Read 8306371 spots for SRR14239532/SRR14239532.sra Written 8306371 spots for SRR14239532/SRR14239532.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: 00:05:59 8306371 reads; of these: 8306371 (100.00%) were paired; of these: 3958381 (47.65%) aligned concordantly 0 times 3214606 (38.70%) aligned concordantly exactly 1 time 1133384 (13.64%) aligned concordantly >1 times ---- 3958381 pairs aligned concordantly 0 times; of these: 42931 (1.08%) aligned discordantly 1 time ---- 3915450 pairs aligned 0 times concordantly or discordantly; of these: 7830900 mates make up the pairs; of these: 4699061 (60.01%) aligned 0 times 2335682 (29.83%) aligned exactly 1 time 796157 (10.17%) aligned >1 times 71.71% overall alignment rate Time searching: 00:05:59 Overall time: 00:05:59 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_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] 295736 / 4388380 = 0.0674 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 22:12:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.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 22:12:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:12:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:12:25: 1000000 INFO @ Sat, 15 Jan 2022 22:12:31: 2000000 INFO @ Sat, 15 Jan 2022 22:12:37: 3000000 INFO @ Sat, 15 Jan 2022 22:12:43: 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 22:12:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.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 22:12:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:12:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:12:50: 5000000 INFO @ Sat, 15 Jan 2022 22:12:55: 1000000 INFO @ Sat, 15 Jan 2022 22:12:56: 6000000 INFO @ Sat, 15 Jan 2022 22:13:02: 2000000 INFO @ Sat, 15 Jan 2022 22:13:03: 7000000 INFO @ Sat, 15 Jan 2022 22:13:09: 3000000 INFO @ Sat, 15 Jan 2022 22:13:09: 8000000 INFO @ Sat, 15 Jan 2022 22:13:15: 4000000 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 22:13:16: 9000000 INFO @ Sat, 15 Jan 2022 22:13:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.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 22:13:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:13:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:13:22: 5000000 INFO @ Sat, 15 Jan 2022 22:13:23: 10000000 INFO @ Sat, 15 Jan 2022 22:13:26: 1000000 INFO @ Sat, 15 Jan 2022 22:13:29: 6000000 INFO @ Sat, 15 Jan 2022 22:13:30: 11000000 INFO @ Sat, 15 Jan 2022 22:13:32: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 22:13:32: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 22:13:32: #1 total tags in treatment: 4052617 INFO @ Sat, 15 Jan 2022 22:13:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:13:32: #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 22:13:32: #1 tags after filtering in treatment: 2757327 INFO @ Sat, 15 Jan 2022 22:13:32: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 22:13:32: #1 finished! INFO @ Sat, 15 Jan 2022 22:13:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:13:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:13:32: #2 number of paired peaks: 54 WARNING @ Sat, 15 Jan 2022 22:13:32: 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 22:13:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.05_peaks.narrowPeak: No such file or directory INFO @ Sat, 15 Jan 2022 22:13:33: 2000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:13:36: 7000000 INFO @ Sat, 15 Jan 2022 22:13:39: 3000000 INFO @ Sat, 15 Jan 2022 22:13:42: 8000000 INFO @ Sat, 15 Jan 2022 22:13:46: 4000000 INFO @ Sat, 15 Jan 2022 22:13:49: 9000000 INFO @ Sat, 15 Jan 2022 22:13:53: 5000000 INFO @ Sat, 15 Jan 2022 22:13:56: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:14:00: 6000000 INFO @ Sat, 15 Jan 2022 22:14:02: 11000000 INFO @ Sat, 15 Jan 2022 22:14:04: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 22:14:04: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 22:14:04: #1 total tags in treatment: 4052617 INFO @ Sat, 15 Jan 2022 22:14:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:14:04: #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 22:14:04: #1 tags after filtering in treatment: 2757327 INFO @ Sat, 15 Jan 2022 22:14:04: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 22:14:04: #1 finished! INFO @ Sat, 15 Jan 2022 22:14:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:14:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:14:04: #2 number of paired peaks: 54 WARNING @ Sat, 15 Jan 2022 22:14:04: 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 22:14:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.10_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/SRX10602364/SRX10602364.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:14:06: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:14:12: 8000000 INFO @ Sat, 15 Jan 2022 22:14:18: 9000000 INFO @ Sat, 15 Jan 2022 22:14:24: 10000000 INFO @ Sat, 15 Jan 2022 22:14:31: 11000000 INFO @ Sat, 15 Jan 2022 22:14:32: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 22:14:32: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 22:14:32: #1 total tags in treatment: 4052617 INFO @ Sat, 15 Jan 2022 22:14:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:14:32: #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 22:14:33: #1 tags after filtering in treatment: 2757327 INFO @ Sat, 15 Jan 2022 22:14:33: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 22:14:33: #1 finished! INFO @ Sat, 15 Jan 2022 22:14:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:14:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:14:33: #2 number of paired peaks: 54 WARNING @ Sat, 15 Jan 2022 22:14:33: 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 22:14:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.20_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/SRX10602364/SRX10602364.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10602364/SRX10602364.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling