Job ID = 5791783 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 14,926,674 reads read : 29,853,348 reads written : 29,853,348 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:09:49 14926674 reads; of these: 14926674 (100.00%) were paired; of these: 3550725 (23.79%) aligned concordantly 0 times 9771179 (65.46%) aligned concordantly exactly 1 time 1604770 (10.75%) aligned concordantly >1 times ---- 3550725 pairs aligned concordantly 0 times; of these: 1102836 (31.06%) aligned discordantly 1 time ---- 2447889 pairs aligned 0 times concordantly or discordantly; of these: 4895778 mates make up the pairs; of these: 4238281 (86.57%) aligned 0 times 275089 (5.62%) aligned exactly 1 time 382408 (7.81%) aligned >1 times 85.80% overall alignment rate Time searching: 00:09:49 Overall time: 00:09:49 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] 2021403 / 12392559 = 0.1631 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 11:11:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.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 @ Wed, 22 Apr 2020 11:11:44: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:11:44: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:11:51: 1000000 INFO @ Wed, 22 Apr 2020 11:11:57: 2000000 INFO @ Wed, 22 Apr 2020 11:12:04: 3000000 INFO @ Wed, 22 Apr 2020 11:12:11: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 11:12:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.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 @ Wed, 22 Apr 2020 11:12:15: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:12:15: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:12:17: 5000000 INFO @ Wed, 22 Apr 2020 11:12:21: 1000000 INFO @ Wed, 22 Apr 2020 11:12:24: 6000000 INFO @ Wed, 22 Apr 2020 11:12:28: 2000000 INFO @ Wed, 22 Apr 2020 11:12:31: 7000000 INFO @ Wed, 22 Apr 2020 11:12:35: 3000000 INFO @ Wed, 22 Apr 2020 11:12:38: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 11:12:42: 4000000 INFO @ Wed, 22 Apr 2020 11:12:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.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 @ Wed, 22 Apr 2020 11:12:43: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:12:43: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:12:45: 9000000 INFO @ Wed, 22 Apr 2020 11:12:49: 5000000 INFO @ Wed, 22 Apr 2020 11:12:51: 1000000 INFO @ Wed, 22 Apr 2020 11:12:53: 10000000 INFO @ Wed, 22 Apr 2020 11:12:56: 6000000 INFO @ Wed, 22 Apr 2020 11:12:57: 2000000 INFO @ Wed, 22 Apr 2020 11:13:00: 11000000 INFO @ Wed, 22 Apr 2020 11:13:03: 7000000 INFO @ Wed, 22 Apr 2020 11:13:04: 3000000 INFO @ Wed, 22 Apr 2020 11:13:07: 12000000 INFO @ Wed, 22 Apr 2020 11:13:10: 8000000 INFO @ Wed, 22 Apr 2020 11:13:10: 4000000 INFO @ Wed, 22 Apr 2020 11:13:14: 13000000 INFO @ Wed, 22 Apr 2020 11:13:17: 5000000 INFO @ Wed, 22 Apr 2020 11:13:17: 9000000 INFO @ Wed, 22 Apr 2020 11:13:21: 14000000 INFO @ Wed, 22 Apr 2020 11:13:24: 6000000 INFO @ Wed, 22 Apr 2020 11:13:24: 10000000 INFO @ Wed, 22 Apr 2020 11:13:28: 15000000 INFO @ Wed, 22 Apr 2020 11:13:30: 7000000 INFO @ Wed, 22 Apr 2020 11:13:31: 11000000 INFO @ Wed, 22 Apr 2020 11:13:36: 16000000 INFO @ Wed, 22 Apr 2020 11:13:37: 8000000 INFO @ Wed, 22 Apr 2020 11:13:38: 12000000 INFO @ Wed, 22 Apr 2020 11:13:43: 17000000 INFO @ Wed, 22 Apr 2020 11:13:44: 9000000 INFO @ Wed, 22 Apr 2020 11:13:45: 13000000 INFO @ Wed, 22 Apr 2020 11:13:50: 18000000 INFO @ Wed, 22 Apr 2020 11:13:51: 10000000 INFO @ Wed, 22 Apr 2020 11:13:52: 14000000 INFO @ Wed, 22 Apr 2020 11:13:57: 11000000 INFO @ Wed, 22 Apr 2020 11:13:58: 19000000 INFO @ Wed, 22 Apr 2020 11:13:59: 15000000 INFO @ Wed, 22 Apr 2020 11:14:04: 12000000 INFO @ Wed, 22 Apr 2020 11:14:05: 20000000 INFO @ Wed, 22 Apr 2020 11:14:06: 16000000 INFO @ Wed, 22 Apr 2020 11:14:10: 13000000 INFO @ Wed, 22 Apr 2020 11:14:12: 21000000 INFO @ Wed, 22 Apr 2020 11:14:13: 17000000 INFO @ Wed, 22 Apr 2020 11:14:16: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 11:14:16: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 11:14:16: #1 total tags in treatment: 9508293 INFO @ Wed, 22 Apr 2020 11:14:16: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:14:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 11:14:16: #1 tags after filtering in treatment: 4685023 INFO @ Wed, 22 Apr 2020 11:14:16: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 22 Apr 2020 11:14:16: #1 finished! INFO @ Wed, 22 Apr 2020 11:14:16: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:14:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:14:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:14:16: 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 @ Wed, 22 Apr 2020 11:14:16: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 11:14:17: 14000000 INFO @ Wed, 22 Apr 2020 11:14:20: 18000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.05_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/SRX7756594/SRX7756594.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:14:23: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 11:14:27: 19000000 INFO @ Wed, 22 Apr 2020 11:14:30: 16000000 INFO @ Wed, 22 Apr 2020 11:14:34: 20000000 INFO @ Wed, 22 Apr 2020 11:14:36: 17000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 11:14:41: 21000000 INFO @ Wed, 22 Apr 2020 11:14:43: 18000000 INFO @ Wed, 22 Apr 2020 11:14:44: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 11:14:44: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 11:14:44: #1 total tags in treatment: 9508293 INFO @ Wed, 22 Apr 2020 11:14:44: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:14:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 11:14:45: #1 tags after filtering in treatment: 4685023 INFO @ Wed, 22 Apr 2020 11:14:45: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 22 Apr 2020 11:14:45: #1 finished! INFO @ Wed, 22 Apr 2020 11:14:45: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:14:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:14:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:14:45: 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 @ Wed, 22 Apr 2020 11:14:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.10_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/SRX7756594/SRX7756594.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:14:49: 19000000 INFO @ Wed, 22 Apr 2020 11:14:55: 20000000 INFO @ Wed, 22 Apr 2020 11:15:00: 21000000 INFO @ Wed, 22 Apr 2020 11:15:03: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 11:15:03: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 11:15:03: #1 total tags in treatment: 9508293 INFO @ Wed, 22 Apr 2020 11:15:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:15:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 11:15:03: #1 tags after filtering in treatment: 4685023 INFO @ Wed, 22 Apr 2020 11:15:03: #1 Redundant rate of treatment: 0.51 INFO @ Wed, 22 Apr 2020 11:15:03: #1 finished! INFO @ Wed, 22 Apr 2020 11:15:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:15:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:15:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:15:03: 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 @ Wed, 22 Apr 2020 11:15:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.20_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/SRX7756594/SRX7756594.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756594/SRX7756594.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling