Job ID = 14520360 SRX = SRX11781107 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:00:21 prefetch.2.10.7: 1) Downloading 'SRR15481050'... 2022-01-15T10:00:21 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:01:35 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:01:35 prefetch.2.10.7: 1) 'SRR15481050' was downloaded successfully 2022-01-15T10:01:35 prefetch.2.10.7: 'SRR15481050' has 0 unresolved dependencies Read 16026889 spots for SRR15481050/SRR15481050.sra Written 16026889 spots for SRR15481050/SRR15481050.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: 00:12:42 16026889 reads; of these: 16026889 (100.00%) were paired; of these: 3402359 (21.23%) aligned concordantly 0 times 11108013 (69.31%) aligned concordantly exactly 1 time 1516517 (9.46%) aligned concordantly >1 times ---- 3402359 pairs aligned concordantly 0 times; of these: 294361 (8.65%) aligned discordantly 1 time ---- 3107998 pairs aligned 0 times concordantly or discordantly; of these: 6215996 mates make up the pairs; of these: 3664680 (58.96%) aligned 0 times 2154625 (34.66%) aligned exactly 1 time 396691 (6.38%) aligned >1 times 88.57% overall alignment rate Time searching: 00:12:42 Overall time: 00:12:42 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 12 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] 3678002 / 12917840 = 0.2847 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 19:26:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.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 19:26:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:26:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:26:49: 1000000 INFO @ Sat, 15 Jan 2022 19:26:55: 2000000 INFO @ Sat, 15 Jan 2022 19:27:02: 3000000 INFO @ Sat, 15 Jan 2022 19:27:09: 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 19:27:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.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 19:27:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:27:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:27:15: 5000000 INFO @ Sat, 15 Jan 2022 19:27:19: 1000000 INFO @ Sat, 15 Jan 2022 19:27:22: 6000000 INFO @ Sat, 15 Jan 2022 19:27:25: 2000000 INFO @ Sat, 15 Jan 2022 19:27:28: 7000000 INFO @ Sat, 15 Jan 2022 19:27:31: 3000000 INFO @ Sat, 15 Jan 2022 19:27:35: 8000000 INFO @ Sat, 15 Jan 2022 19:27:38: 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 19:27:41: 9000000 INFO @ Sat, 15 Jan 2022 19:27:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.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 19:27:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:27:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:27:44: 5000000 INFO @ Sat, 15 Jan 2022 19:27:47: 10000000 INFO @ Sat, 15 Jan 2022 19:27:48: 1000000 INFO @ Sat, 15 Jan 2022 19:27:50: 6000000 INFO @ Sat, 15 Jan 2022 19:27:54: 11000000 INFO @ Sat, 15 Jan 2022 19:27:55: 2000000 INFO @ Sat, 15 Jan 2022 19:27:57: 7000000 INFO @ Sat, 15 Jan 2022 19:28:00: 12000000 INFO @ Sat, 15 Jan 2022 19:28:01: 3000000 INFO @ Sat, 15 Jan 2022 19:28:03: 8000000 INFO @ Sat, 15 Jan 2022 19:28:07: 13000000 INFO @ Sat, 15 Jan 2022 19:28:08: 4000000 INFO @ Sat, 15 Jan 2022 19:28:09: 9000000 INFO @ Sat, 15 Jan 2022 19:28:13: 14000000 INFO @ Sat, 15 Jan 2022 19:28:14: 5000000 INFO @ Sat, 15 Jan 2022 19:28:15: 10000000 INFO @ Sat, 15 Jan 2022 19:28:20: 15000000 INFO @ Sat, 15 Jan 2022 19:28:20: 6000000 INFO @ Sat, 15 Jan 2022 19:28:22: 11000000 INFO @ Sat, 15 Jan 2022 19:28:26: 16000000 INFO @ Sat, 15 Jan 2022 19:28:26: 7000000 INFO @ Sat, 15 Jan 2022 19:28:28: 12000000 INFO @ Sat, 15 Jan 2022 19:28:32: 17000000 INFO @ Sat, 15 Jan 2022 19:28:32: 8000000 INFO @ Sat, 15 Jan 2022 19:28:34: 13000000 INFO @ Sat, 15 Jan 2022 19:28:39: 18000000 INFO @ Sat, 15 Jan 2022 19:28:39: 9000000 INFO @ Sat, 15 Jan 2022 19:28:41: 14000000 INFO @ Sat, 15 Jan 2022 19:28:45: 19000000 INFO @ Sat, 15 Jan 2022 19:28:45: 10000000 INFO @ Sat, 15 Jan 2022 19:28:47: 15000000 INFO @ Sat, 15 Jan 2022 19:28:52: 20000000 INFO @ Sat, 15 Jan 2022 19:28:52: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:28:54: 16000000 INFO @ Sat, 15 Jan 2022 19:28:58: 21000000 INFO @ Sat, 15 Jan 2022 19:28:58: 12000000 INFO @ Sat, 15 Jan 2022 19:28:58: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:28:58: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:28:58: #1 total tags in treatment: 9000912 INFO @ Sat, 15 Jan 2022 19:28:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:28:58: #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 19:28:59: #1 tags after filtering in treatment: 4901351 INFO @ Sat, 15 Jan 2022 19:28:59: #1 Redundant rate of treatment: 0.46 INFO @ Sat, 15 Jan 2022 19:28:59: #1 finished! INFO @ Sat, 15 Jan 2022 19:28:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:28:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:28:59: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:28:59: Too few paired peaks (0) 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 19:28:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.05_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/SRX11781107/SRX11781107.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:29:00: 17000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:29:05: 13000000 INFO @ Sat, 15 Jan 2022 19:29:07: 18000000 INFO @ Sat, 15 Jan 2022 19:29:11: 14000000 INFO @ Sat, 15 Jan 2022 19:29:13: 19000000 INFO @ Sat, 15 Jan 2022 19:29:17: 15000000 INFO @ Sat, 15 Jan 2022 19:29:20: 20000000 INFO @ Sat, 15 Jan 2022 19:29:24: 16000000 INFO @ Sat, 15 Jan 2022 19:29:26: 21000000 INFO @ Sat, 15 Jan 2022 19:29:27: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:29:27: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:29:27: #1 total tags in treatment: 9000912 INFO @ Sat, 15 Jan 2022 19:29:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:29:27: #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 19:29:27: #1 tags after filtering in treatment: 4901351 INFO @ Sat, 15 Jan 2022 19:29:27: #1 Redundant rate of treatment: 0.46 INFO @ Sat, 15 Jan 2022 19:29:27: #1 finished! INFO @ Sat, 15 Jan 2022 19:29:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:29:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:29:27: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:29:27: Too few paired peaks (0) 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 19:29:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.10_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/SRX11781107/SRX11781107.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:29:30: 17000000 INFO @ Sat, 15 Jan 2022 19:29:36: 18000000 INFO @ Sat, 15 Jan 2022 19:29:42: 19000000 INFO @ Sat, 15 Jan 2022 19:29:47: 20000000 INFO @ Sat, 15 Jan 2022 19:29:53: 21000000 INFO @ Sat, 15 Jan 2022 19:29:53: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 19:29:53: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 19:29:53: #1 total tags in treatment: 9000912 INFO @ Sat, 15 Jan 2022 19:29:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:29:53: #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 19:29:54: #1 tags after filtering in treatment: 4901351 INFO @ Sat, 15 Jan 2022 19:29:54: #1 Redundant rate of treatment: 0.46 INFO @ Sat, 15 Jan 2022 19:29:54: #1 finished! INFO @ Sat, 15 Jan 2022 19:29:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:29:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:29:54: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:29:54: Too few paired peaks (0) 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 19:29:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.20_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/SRX11781107/SRX11781107.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781107/SRX11781107.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling