Job ID = 5791662 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 32,420,682 reads read : 64,841,364 reads written : 64,841,364 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: 00:24:36 32420682 reads; of these: 32420682 (100.00%) were paired; of these: 4530468 (13.97%) aligned concordantly 0 times 21870233 (67.46%) aligned concordantly exactly 1 time 6019981 (18.57%) aligned concordantly >1 times ---- 4530468 pairs aligned concordantly 0 times; of these: 12887 (0.28%) aligned discordantly 1 time ---- 4517581 pairs aligned 0 times concordantly or discordantly; of these: 9035162 mates make up the pairs; of these: 8608615 (95.28%) aligned 0 times 292243 (3.23%) aligned exactly 1 time 134304 (1.49%) aligned >1 times 86.72% overall alignment rate Time searching: 00:24:36 Overall time: 00:24:36 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 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] 14506665 / 27897270 = 0.5200 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 11:08:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.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 11:08:59: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:08:59: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:09:03: 1000000 INFO @ Wed, 22 Apr 2020 11:09:07: 2000000 INFO @ Wed, 22 Apr 2020 11:09:11: 3000000 INFO @ Wed, 22 Apr 2020 11:09:15: 4000000 INFO @ Wed, 22 Apr 2020 11:09:19: 5000000 INFO @ Wed, 22 Apr 2020 11:09:24: 6000000 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 11:09:28: 7000000 INFO @ Wed, 22 Apr 2020 11:09:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.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 11:09:29: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:09:29: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:09:32: 8000000 INFO @ Wed, 22 Apr 2020 11:09:33: 1000000 INFO @ Wed, 22 Apr 2020 11:09:36: 9000000 INFO @ Wed, 22 Apr 2020 11:09:37: 2000000 INFO @ Wed, 22 Apr 2020 11:09:40: 10000000 INFO @ Wed, 22 Apr 2020 11:09:42: 3000000 INFO @ Wed, 22 Apr 2020 11:09:44: 11000000 INFO @ Wed, 22 Apr 2020 11:09:46: 4000000 INFO @ Wed, 22 Apr 2020 11:09:48: 12000000 INFO @ Wed, 22 Apr 2020 11:09:50: 5000000 INFO @ Wed, 22 Apr 2020 11:09:52: 13000000 INFO @ Wed, 22 Apr 2020 11:09:54: 6000000 INFO @ Wed, 22 Apr 2020 11:09:56: 14000000 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 11:09:58: 7000000 INFO @ Wed, 22 Apr 2020 11:09:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.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 11:09:59: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:09:59: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:10:00: 15000000 INFO @ Wed, 22 Apr 2020 11:10:03: 8000000 INFO @ Wed, 22 Apr 2020 11:10:04: 1000000 INFO @ Wed, 22 Apr 2020 11:10:04: 16000000 INFO @ Wed, 22 Apr 2020 11:10:07: 9000000 INFO @ Wed, 22 Apr 2020 11:10:08: 17000000 INFO @ Wed, 22 Apr 2020 11:10:09: 2000000 INFO @ Wed, 22 Apr 2020 11:10:11: 10000000 INFO @ Wed, 22 Apr 2020 11:10:12: 18000000 INFO @ Wed, 22 Apr 2020 11:10:14: 3000000 INFO @ Wed, 22 Apr 2020 11:10:15: 11000000 INFO @ Wed, 22 Apr 2020 11:10:16: 19000000 INFO @ Wed, 22 Apr 2020 11:10:18: 4000000 INFO @ Wed, 22 Apr 2020 11:10:19: 12000000 INFO @ Wed, 22 Apr 2020 11:10:20: 20000000 INFO @ Wed, 22 Apr 2020 11:10:22: 5000000 INFO @ Wed, 22 Apr 2020 11:10:24: 13000000 INFO @ Wed, 22 Apr 2020 11:10:25: 21000000 INFO @ Wed, 22 Apr 2020 11:10:27: 6000000 INFO @ Wed, 22 Apr 2020 11:10:28: 14000000 INFO @ Wed, 22 Apr 2020 11:10:29: 22000000 INFO @ Wed, 22 Apr 2020 11:10:31: 7000000 INFO @ Wed, 22 Apr 2020 11:10:33: 15000000 INFO @ Wed, 22 Apr 2020 11:10:34: 23000000 INFO @ Wed, 22 Apr 2020 11:10:35: 8000000 INFO @ Wed, 22 Apr 2020 11:10:37: 16000000 INFO @ Wed, 22 Apr 2020 11:10:39: 24000000 INFO @ Wed, 22 Apr 2020 11:10:40: 9000000 INFO @ Wed, 22 Apr 2020 11:10:42: 17000000 INFO @ Wed, 22 Apr 2020 11:10:43: 25000000 INFO @ Wed, 22 Apr 2020 11:10:44: 10000000 INFO @ Wed, 22 Apr 2020 11:10:46: 18000000 INFO @ Wed, 22 Apr 2020 11:10:48: 26000000 INFO @ Wed, 22 Apr 2020 11:10:48: 11000000 INFO @ Wed, 22 Apr 2020 11:10:50: 19000000 INFO @ Wed, 22 Apr 2020 11:10:52: 12000000 INFO @ Wed, 22 Apr 2020 11:10:53: 27000000 INFO @ Wed, 22 Apr 2020 11:10:55: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:10:55: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:10:55: #1 total tags in treatment: 13386665 INFO @ Wed, 22 Apr 2020 11:10:55: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:10:55: #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 11:10:55: #1 tags after filtering in treatment: 5933088 INFO @ Wed, 22 Apr 2020 11:10:55: #1 Redundant rate of treatment: 0.56 INFO @ Wed, 22 Apr 2020 11:10:55: #1 finished! INFO @ Wed, 22 Apr 2020 11:10:55: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:10:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:10:56: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:10:56: 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 11:10:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:10:57: 13000000 INFO @ Wed, 22 Apr 2020 11:10:57: 20000000 INFO @ Wed, 22 Apr 2020 11:11:01: 14000000 INFO @ Wed, 22 Apr 2020 11:11:03: 21000000 INFO @ Wed, 22 Apr 2020 11:11:06: 15000000 INFO @ Wed, 22 Apr 2020 11:11:09: 22000000 INFO @ Wed, 22 Apr 2020 11:11:10: 16000000 INFO @ Wed, 22 Apr 2020 11:11:14: 17000000 INFO @ Wed, 22 Apr 2020 11:11:16: 23000000 INFO @ Wed, 22 Apr 2020 11:11:19: 18000000 INFO @ Wed, 22 Apr 2020 11:11:22: 24000000 INFO @ Wed, 22 Apr 2020 11:11:23: 19000000 INFO @ Wed, 22 Apr 2020 11:11:27: 20000000 INFO @ Wed, 22 Apr 2020 11:11:28: 25000000 INFO @ Wed, 22 Apr 2020 11:11:32: 21000000 INFO @ Wed, 22 Apr 2020 11:11:34: 26000000 INFO @ Wed, 22 Apr 2020 11:11:36: 22000000 INFO @ Wed, 22 Apr 2020 11:11:40: 27000000 INFO @ Wed, 22 Apr 2020 11:11:41: 23000000 INFO @ Wed, 22 Apr 2020 11:11:42: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:11:42: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:11:42: #1 total tags in treatment: 13386665 INFO @ Wed, 22 Apr 2020 11:11:42: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:11:42: #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 11:11:42: #1 tags after filtering in treatment: 5933088 INFO @ Wed, 22 Apr 2020 11:11:42: #1 Redundant rate of treatment: 0.56 INFO @ Wed, 22 Apr 2020 11:11:42: #1 finished! INFO @ Wed, 22 Apr 2020 11:11:42: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:11:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:11:42: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:11:42: 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 11:11:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.10_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/SRX7409625/SRX7409625.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:11:45: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 11:11:49: 25000000 INFO @ Wed, 22 Apr 2020 11:11:54: 26000000 INFO @ Wed, 22 Apr 2020 11:11:58: 27000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 11:11:59: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:11:59: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:11:59: #1 total tags in treatment: 13386665 INFO @ Wed, 22 Apr 2020 11:11:59: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:11:59: #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 11:11:59: #1 tags after filtering in treatment: 5933088 INFO @ Wed, 22 Apr 2020 11:11:59: #1 Redundant rate of treatment: 0.56 INFO @ Wed, 22 Apr 2020 11:11:59: #1 finished! INFO @ Wed, 22 Apr 2020 11:11:59: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:11:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:12:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:12:00: 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 11:12:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.20_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/SRX7409625/SRX7409625.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409625/SRX7409625.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling