Job ID = 12531658 SRX = SRX4555031 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18729248 spots for SRR7696726/SRR7696726.sra Written 18729248 spots for SRR7696726/SRR7696726.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: 00:23:11 18729248 reads; of these: 18729248 (100.00%) were paired; of these: 1132516 (6.05%) aligned concordantly 0 times 11119056 (59.37%) aligned concordantly exactly 1 time 6477676 (34.59%) aligned concordantly >1 times ---- 1132516 pairs aligned concordantly 0 times; of these: 69249 (6.11%) aligned discordantly 1 time ---- 1063267 pairs aligned 0 times concordantly or discordantly; of these: 2126534 mates make up the pairs; of these: 1744016 (82.01%) aligned 0 times 231176 (10.87%) aligned exactly 1 time 151342 (7.12%) aligned >1 times 95.34% overall alignment rate Time searching: 00:23:11 Overall time: 00:23:11 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 24 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] 2730161 / 8154453 = 0.3348 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:32:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.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, 17 Apr 2021 09:32:37: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:32:37: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:32:44: 1000000 INFO @ Sat, 17 Apr 2021 09:32:50: 2000000 INFO @ Sat, 17 Apr 2021 09:32:57: 3000000 INFO @ Sat, 17 Apr 2021 09:33:03: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:33:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.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, 17 Apr 2021 09:33:06: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:33:06: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:33:10: 5000000 INFO @ Sat, 17 Apr 2021 09:33:13: 1000000 INFO @ Sat, 17 Apr 2021 09:33:16: 6000000 INFO @ Sat, 17 Apr 2021 09:33:19: 2000000 INFO @ Sat, 17 Apr 2021 09:33:23: 7000000 INFO @ Sat, 17 Apr 2021 09:33:26: 3000000 INFO @ Sat, 17 Apr 2021 09:33:29: 8000000 INFO @ Sat, 17 Apr 2021 09:33:32: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:33:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.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, 17 Apr 2021 09:33:36: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:33:36: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:33:36: 9000000 INFO @ Sat, 17 Apr 2021 09:33:39: 5000000 INFO @ Sat, 17 Apr 2021 09:33:42: 1000000 INFO @ Sat, 17 Apr 2021 09:33:42: 10000000 INFO @ Sat, 17 Apr 2021 09:33:45: 6000000 INFO @ Sat, 17 Apr 2021 09:33:49: 11000000 INFO @ Sat, 17 Apr 2021 09:33:49: 2000000 INFO @ Sat, 17 Apr 2021 09:33:52: 7000000 INFO @ Sat, 17 Apr 2021 09:33:56: 3000000 INFO @ Sat, 17 Apr 2021 09:33:56: 12000000 INFO @ Sat, 17 Apr 2021 09:33:58: 8000000 INFO @ Sat, 17 Apr 2021 09:34:02: 4000000 INFO @ Sat, 17 Apr 2021 09:34:02: 13000000 INFO @ Sat, 17 Apr 2021 09:34:05: 9000000 INFO @ Sat, 17 Apr 2021 09:34:09: 5000000 INFO @ Sat, 17 Apr 2021 09:34:09: 14000000 INFO @ Sat, 17 Apr 2021 09:34:11: 10000000 INFO @ Sat, 17 Apr 2021 09:34:15: 6000000 INFO @ Sat, 17 Apr 2021 09:34:16: 15000000 INFO @ Sat, 17 Apr 2021 09:34:17: 11000000 INFO @ Sat, 17 Apr 2021 09:34:21: 7000000 INFO @ Sat, 17 Apr 2021 09:34:22: 16000000 INFO @ Sat, 17 Apr 2021 09:34:24: 12000000 INFO @ Sat, 17 Apr 2021 09:34:28: 8000000 INFO @ Sat, 17 Apr 2021 09:34:28: 17000000 INFO @ Sat, 17 Apr 2021 09:34:30: 13000000 INFO @ Sat, 17 Apr 2021 09:34:35: 9000000 INFO @ Sat, 17 Apr 2021 09:34:35: 18000000 INFO @ Sat, 17 Apr 2021 09:34:37: 14000000 INFO @ Sat, 17 Apr 2021 09:34:41: 10000000 INFO @ Sat, 17 Apr 2021 09:34:41: 19000000 INFO @ Sat, 17 Apr 2021 09:34:43: 15000000 INFO @ Sat, 17 Apr 2021 09:34:47: 20000000 INFO @ Sat, 17 Apr 2021 09:34:47: 11000000 INFO @ Sat, 17 Apr 2021 09:34:49: 16000000 INFO @ Sat, 17 Apr 2021 09:34:53: 21000000 INFO @ Sat, 17 Apr 2021 09:34:54: 12000000 INFO @ Sat, 17 Apr 2021 09:34:55: 17000000 INFO @ Sat, 17 Apr 2021 09:35:00: 22000000 INFO @ Sat, 17 Apr 2021 09:35:00: 13000000 INFO @ Sat, 17 Apr 2021 09:35:01: 18000000 INFO @ Sat, 17 Apr 2021 09:35:06: 23000000 INFO @ Sat, 17 Apr 2021 09:35:07: 14000000 INFO @ Sat, 17 Apr 2021 09:35:08: 19000000 INFO @ Sat, 17 Apr 2021 09:35:13: 24000000 INFO @ Sat, 17 Apr 2021 09:35:13: 15000000 INFO @ Sat, 17 Apr 2021 09:35:13: 20000000 INFO @ Sat, 17 Apr 2021 09:35:19: 16000000 INFO @ Sat, 17 Apr 2021 09:35:20: 25000000 INFO @ Sat, 17 Apr 2021 09:35:20: 21000000 INFO @ Sat, 17 Apr 2021 09:35:25: 17000000 INFO @ Sat, 17 Apr 2021 09:35:26: 22000000 INFO @ Sat, 17 Apr 2021 09:35:26: 26000000 INFO @ Sat, 17 Apr 2021 09:35:31: 18000000 INFO @ Sat, 17 Apr 2021 09:35:32: 23000000 INFO @ Sat, 17 Apr 2021 09:35:32: 27000000 INFO @ Sat, 17 Apr 2021 09:35:37: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:35:39: 24000000 INFO @ Sat, 17 Apr 2021 09:35:39: 28000000 INFO @ Sat, 17 Apr 2021 09:35:43: 20000000 INFO @ Sat, 17 Apr 2021 09:35:45: 25000000 INFO @ Sat, 17 Apr 2021 09:35:45: 29000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:35:49: 21000000 INFO @ Sat, 17 Apr 2021 09:35:51: 30000000 INFO @ Sat, 17 Apr 2021 09:35:51: 26000000 INFO @ Sat, 17 Apr 2021 09:35:53: #1 tag size is determined as 82 bps INFO @ Sat, 17 Apr 2021 09:35:53: #1 tag size = 82 INFO @ Sat, 17 Apr 2021 09:35:53: #1 total tags in treatment: 14870762 INFO @ Sat, 17 Apr 2021 09:35:53: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:35:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:35:54: #1 tags after filtering in treatment: 3982147 INFO @ Sat, 17 Apr 2021 09:35:54: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:35:54: #1 finished! INFO @ Sat, 17 Apr 2021 09:35:54: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:35:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:35:54: #2 number of paired peaks: 24 WARNING @ Sat, 17 Apr 2021 09:35:54: Too few paired peaks (24) 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, 17 Apr 2021 09:35:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.05_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/SRX4555031/SRX4555031.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:35:55: 22000000 INFO @ Sat, 17 Apr 2021 09:35:58: 27000000 INFO @ Sat, 17 Apr 2021 09:36:02: 23000000 INFO @ Sat, 17 Apr 2021 09:36:04: 28000000 INFO @ Sat, 17 Apr 2021 09:36:08: 24000000 INFO @ Sat, 17 Apr 2021 09:36:10: 29000000 INFO @ Sat, 17 Apr 2021 09:36:15: 25000000 INFO @ Sat, 17 Apr 2021 09:36:16: 30000000 INFO @ Sat, 17 Apr 2021 09:36:18: #1 tag size is determined as 82 bps INFO @ Sat, 17 Apr 2021 09:36:18: #1 tag size = 82 INFO @ Sat, 17 Apr 2021 09:36:18: #1 total tags in treatment: 14870762 INFO @ Sat, 17 Apr 2021 09:36:18: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:36:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:36:18: #1 tags after filtering in treatment: 3982147 INFO @ Sat, 17 Apr 2021 09:36:18: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:36:18: #1 finished! INFO @ Sat, 17 Apr 2021 09:36:18: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:36:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:36:19: #2 number of paired peaks: 24 WARNING @ Sat, 17 Apr 2021 09:36:19: Too few paired peaks (24) 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, 17 Apr 2021 09:36:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.10_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/SRX4555031/SRX4555031.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:36:21: 26000000 INFO @ Sat, 17 Apr 2021 09:36:27: 27000000 INFO @ Sat, 17 Apr 2021 09:36:33: 28000000 INFO @ Sat, 17 Apr 2021 09:36:39: 29000000 INFO @ Sat, 17 Apr 2021 09:36:45: 30000000 INFO @ Sat, 17 Apr 2021 09:36:47: #1 tag size is determined as 82 bps INFO @ Sat, 17 Apr 2021 09:36:47: #1 tag size = 82 INFO @ Sat, 17 Apr 2021 09:36:47: #1 total tags in treatment: 14870762 INFO @ Sat, 17 Apr 2021 09:36:47: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:36:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:36:47: #1 tags after filtering in treatment: 3982147 INFO @ Sat, 17 Apr 2021 09:36:47: #1 Redundant rate of treatment: 0.73 INFO @ Sat, 17 Apr 2021 09:36:47: #1 finished! INFO @ Sat, 17 Apr 2021 09:36:47: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:36:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:36:47: #2 number of paired peaks: 24 WARNING @ Sat, 17 Apr 2021 09:36:47: Too few paired peaks (24) 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, 17 Apr 2021 09:36:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.20_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/SRX4555031/SRX4555031.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555031/SRX4555031.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling