Job ID = 5791670 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 36,735,572 reads read : 73,471,144 reads written : 73,471,144 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: 00:24:20 36735572 reads; of these: 36735572 (100.00%) were paired; of these: 6123047 (16.67%) aligned concordantly 0 times 26090785 (71.02%) aligned concordantly exactly 1 time 4521740 (12.31%) aligned concordantly >1 times ---- 6123047 pairs aligned concordantly 0 times; of these: 20275 (0.33%) aligned discordantly 1 time ---- 6102772 pairs aligned 0 times concordantly or discordantly; of these: 12205544 mates make up the pairs; of these: 11627981 (95.27%) aligned 0 times 454946 (3.73%) aligned exactly 1 time 122617 (1.00%) aligned >1 times 84.17% overall alignment rate Time searching: 00:24:20 Overall time: 00:24:20 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 28 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] 12297246 / 30620972 = 0.4016 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 11:14:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.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 11:14:57: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:14:57: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:15:01: 1000000 INFO @ Wed, 22 Apr 2020 11:15:06: 2000000 INFO @ Wed, 22 Apr 2020 11:15:10: 3000000 INFO @ Wed, 22 Apr 2020 11:15:14: 4000000 INFO @ Wed, 22 Apr 2020 11:15:18: 5000000 INFO @ Wed, 22 Apr 2020 11:15:22: 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 11:15:26: 7000000 INFO @ Wed, 22 Apr 2020 11:15:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.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 11:15:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:15:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:15:31: 8000000 INFO @ Wed, 22 Apr 2020 11:15:31: 1000000 INFO @ Wed, 22 Apr 2020 11:15:35: 9000000 INFO @ Wed, 22 Apr 2020 11:15:35: 2000000 INFO @ Wed, 22 Apr 2020 11:15:39: 10000000 INFO @ Wed, 22 Apr 2020 11:15:40: 3000000 INFO @ Wed, 22 Apr 2020 11:15:43: 11000000 INFO @ Wed, 22 Apr 2020 11:15:44: 4000000 INFO @ Wed, 22 Apr 2020 11:15:47: 12000000 INFO @ Wed, 22 Apr 2020 11:15:48: 5000000 INFO @ Wed, 22 Apr 2020 11:15:52: 13000000 INFO @ Wed, 22 Apr 2020 11:15:52: 6000000 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 11:15:56: 14000000 INFO @ Wed, 22 Apr 2020 11:15:57: 7000000 INFO @ Wed, 22 Apr 2020 11:15:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.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 11:15:59: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:15:59: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:16:00: 15000000 INFO @ Wed, 22 Apr 2020 11:16:01: 8000000 INFO @ Wed, 22 Apr 2020 11:16:03: 1000000 INFO @ Wed, 22 Apr 2020 11:16:05: 16000000 INFO @ Wed, 22 Apr 2020 11:16:05: 9000000 INFO @ Wed, 22 Apr 2020 11:16:07: 2000000 INFO @ Wed, 22 Apr 2020 11:16:09: 17000000 INFO @ Wed, 22 Apr 2020 11:16:09: 10000000 INFO @ Wed, 22 Apr 2020 11:16:12: 3000000 INFO @ Wed, 22 Apr 2020 11:16:13: 18000000 INFO @ Wed, 22 Apr 2020 11:16:14: 11000000 INFO @ Wed, 22 Apr 2020 11:16:16: 4000000 INFO @ Wed, 22 Apr 2020 11:16:17: 19000000 INFO @ Wed, 22 Apr 2020 11:16:18: 12000000 INFO @ Wed, 22 Apr 2020 11:16:20: 5000000 INFO @ Wed, 22 Apr 2020 11:16:22: 20000000 INFO @ Wed, 22 Apr 2020 11:16:22: 13000000 INFO @ Wed, 22 Apr 2020 11:16:25: 6000000 INFO @ Wed, 22 Apr 2020 11:16:26: 21000000 INFO @ Wed, 22 Apr 2020 11:16:26: 14000000 INFO @ Wed, 22 Apr 2020 11:16:29: 7000000 INFO @ Wed, 22 Apr 2020 11:16:30: 22000000 INFO @ Wed, 22 Apr 2020 11:16:31: 15000000 INFO @ Wed, 22 Apr 2020 11:16:33: 8000000 INFO @ Wed, 22 Apr 2020 11:16:35: 23000000 INFO @ Wed, 22 Apr 2020 11:16:35: 16000000 INFO @ Wed, 22 Apr 2020 11:16:38: 9000000 INFO @ Wed, 22 Apr 2020 11:16:39: 24000000 INFO @ Wed, 22 Apr 2020 11:16:39: 17000000 INFO @ Wed, 22 Apr 2020 11:16:42: 10000000 INFO @ Wed, 22 Apr 2020 11:16:43: 25000000 INFO @ Wed, 22 Apr 2020 11:16:44: 18000000 INFO @ Wed, 22 Apr 2020 11:16:46: 11000000 INFO @ Wed, 22 Apr 2020 11:16:48: 26000000 INFO @ Wed, 22 Apr 2020 11:16:48: 19000000 INFO @ Wed, 22 Apr 2020 11:16:50: 12000000 INFO @ Wed, 22 Apr 2020 11:16:52: 27000000 INFO @ Wed, 22 Apr 2020 11:16:52: 20000000 INFO @ Wed, 22 Apr 2020 11:16:55: 13000000 INFO @ Wed, 22 Apr 2020 11:16:56: 28000000 INFO @ Wed, 22 Apr 2020 11:16:56: 21000000 INFO @ Wed, 22 Apr 2020 11:16:59: 14000000 INFO @ Wed, 22 Apr 2020 11:17:01: 22000000 INFO @ Wed, 22 Apr 2020 11:17:01: 29000000 INFO @ Wed, 22 Apr 2020 11:17:04: 15000000 INFO @ Wed, 22 Apr 2020 11:17:05: 23000000 INFO @ Wed, 22 Apr 2020 11:17:05: 30000000 INFO @ Wed, 22 Apr 2020 11:17:08: 16000000 INFO @ Wed, 22 Apr 2020 11:17:09: 24000000 INFO @ Wed, 22 Apr 2020 11:17:10: 31000000 INFO @ Wed, 22 Apr 2020 11:17:12: 17000000 INFO @ Wed, 22 Apr 2020 11:17:14: 25000000 INFO @ Wed, 22 Apr 2020 11:17:14: 32000000 INFO @ Wed, 22 Apr 2020 11:17:17: 18000000 INFO @ Wed, 22 Apr 2020 11:17:18: 26000000 INFO @ Wed, 22 Apr 2020 11:17:19: 33000000 INFO @ Wed, 22 Apr 2020 11:17:21: 19000000 INFO @ Wed, 22 Apr 2020 11:17:22: 27000000 INFO @ Wed, 22 Apr 2020 11:17:23: 34000000 INFO @ Wed, 22 Apr 2020 11:17:25: 20000000 INFO @ Wed, 22 Apr 2020 11:17:27: 28000000 INFO @ Wed, 22 Apr 2020 11:17:27: 35000000 INFO @ Wed, 22 Apr 2020 11:17:30: 21000000 INFO @ Wed, 22 Apr 2020 11:17:31: 29000000 INFO @ Wed, 22 Apr 2020 11:17:32: 36000000 INFO @ Wed, 22 Apr 2020 11:17:34: 22000000 INFO @ Wed, 22 Apr 2020 11:17:35: 30000000 INFO @ Wed, 22 Apr 2020 11:17:36: 37000000 INFO @ Wed, 22 Apr 2020 11:17:37: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:17:37: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:17:37: #1 total tags in treatment: 18318071 INFO @ Wed, 22 Apr 2020 11:17:37: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:17:37: #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 11:17:38: #1 tags after filtering in treatment: 10220689 INFO @ Wed, 22 Apr 2020 11:17:38: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 11:17:38: #1 finished! INFO @ Wed, 22 Apr 2020 11:17:38: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:17:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:17:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:17:38: 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 11:17:38: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 11:17:38: 23000000 INFO @ Wed, 22 Apr 2020 11:17:39: 31000000 INFO @ Wed, 22 Apr 2020 11:17:43: 24000000 INFO @ Wed, 22 Apr 2020 11:17:43: 32000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.05_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/SRX7409631/SRX7409631.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:17:47: 25000000 INFO @ Wed, 22 Apr 2020 11:17:48: 33000000 INFO @ Wed, 22 Apr 2020 11:17:51: 26000000 INFO @ Wed, 22 Apr 2020 11:17:52: 34000000 INFO @ Wed, 22 Apr 2020 11:17:55: 27000000 INFO @ Wed, 22 Apr 2020 11:17:56: 35000000 INFO @ Wed, 22 Apr 2020 11:17:59: 28000000 INFO @ Wed, 22 Apr 2020 11:18:00: 36000000 INFO @ Wed, 22 Apr 2020 11:18:04: 29000000 INFO @ Wed, 22 Apr 2020 11:18:05: 37000000 INFO @ Wed, 22 Apr 2020 11:18:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:18:06: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:18:06: #1 total tags in treatment: 18318071 INFO @ Wed, 22 Apr 2020 11:18:06: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:18:06: #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 11:18:06: #1 tags after filtering in treatment: 10220689 INFO @ Wed, 22 Apr 2020 11:18:06: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 11:18:06: #1 finished! INFO @ Wed, 22 Apr 2020 11:18:06: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:18:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:18:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:18:07: 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 11:18:07: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 11:18:08: 30000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.10_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/SRX7409631/SRX7409631.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:18:12: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 11:18:16: 32000000 INFO @ Wed, 22 Apr 2020 11:18:20: 33000000 INFO @ Wed, 22 Apr 2020 11:18:24: 34000000 INFO @ Wed, 22 Apr 2020 11:18:28: 35000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 11:18:33: 36000000 INFO @ Wed, 22 Apr 2020 11:18:37: 37000000 INFO @ Wed, 22 Apr 2020 11:18:38: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:18:38: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:18:38: #1 total tags in treatment: 18318071 INFO @ Wed, 22 Apr 2020 11:18:38: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:18:38: #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 11:18:38: #1 tags after filtering in treatment: 10220689 INFO @ Wed, 22 Apr 2020 11:18:38: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 22 Apr 2020 11:18:38: #1 finished! INFO @ Wed, 22 Apr 2020 11:18:38: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:18:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:18:39: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:18:39: 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 11:18:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.20_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/SRX7409631/SRX7409631.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409631/SRX7409631.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling