Job ID = 5791305 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 32,786,495 reads read : 65,572,990 reads written : 65,572,990 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: 00:18:22 32786495 reads; of these: 32786495 (100.00%) were paired; of these: 473279 (1.44%) aligned concordantly 0 times 28349890 (86.47%) aligned concordantly exactly 1 time 3963326 (12.09%) aligned concordantly >1 times ---- 473279 pairs aligned concordantly 0 times; of these: 55967 (11.83%) aligned discordantly 1 time ---- 417312 pairs aligned 0 times concordantly or discordantly; of these: 834624 mates make up the pairs; of these: 655215 (78.50%) aligned 0 times 131865 (15.80%) aligned exactly 1 time 47544 (5.70%) aligned >1 times 99.00% overall alignment rate Time searching: 00:18:22 Overall time: 00:18:22 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] 9208730 / 32321145 = 0.2849 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 10:13:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.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 10:13:41: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:13:41: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:13:47: 1000000 INFO @ Wed, 22 Apr 2020 10:13:53: 2000000 INFO @ Wed, 22 Apr 2020 10:13:59: 3000000 INFO @ Wed, 22 Apr 2020 10:14:04: 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 10:14:10: 5000000 INFO @ Wed, 22 Apr 2020 10:14:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.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 10:14:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:14:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:14:16: 6000000 INFO @ Wed, 22 Apr 2020 10:14:19: 1000000 INFO @ Wed, 22 Apr 2020 10:14:23: 7000000 INFO @ Wed, 22 Apr 2020 10:14:27: 2000000 INFO @ Wed, 22 Apr 2020 10:14:30: 8000000 INFO @ Wed, 22 Apr 2020 10:14:34: 3000000 INFO @ Wed, 22 Apr 2020 10:14:37: 9000000 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 10:14:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.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 10:14:41: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:14:41: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:14:42: 4000000 INFO @ Wed, 22 Apr 2020 10:14:44: 10000000 INFO @ Wed, 22 Apr 2020 10:14:49: 1000000 INFO @ Wed, 22 Apr 2020 10:14:50: 5000000 INFO @ Wed, 22 Apr 2020 10:14:51: 11000000 INFO @ Wed, 22 Apr 2020 10:14:56: 2000000 INFO @ Wed, 22 Apr 2020 10:14:57: 6000000 INFO @ Wed, 22 Apr 2020 10:14:58: 12000000 INFO @ Wed, 22 Apr 2020 10:15:03: 3000000 INFO @ Wed, 22 Apr 2020 10:15:05: 7000000 INFO @ Wed, 22 Apr 2020 10:15:05: 13000000 INFO @ Wed, 22 Apr 2020 10:15:10: 4000000 INFO @ Wed, 22 Apr 2020 10:15:12: 14000000 INFO @ Wed, 22 Apr 2020 10:15:12: 8000000 INFO @ Wed, 22 Apr 2020 10:15:17: 5000000 INFO @ Wed, 22 Apr 2020 10:15:19: 15000000 INFO @ Wed, 22 Apr 2020 10:15:20: 9000000 INFO @ Wed, 22 Apr 2020 10:15:24: 6000000 INFO @ Wed, 22 Apr 2020 10:15:26: 16000000 INFO @ Wed, 22 Apr 2020 10:15:27: 10000000 INFO @ Wed, 22 Apr 2020 10:15:31: 7000000 INFO @ Wed, 22 Apr 2020 10:15:33: 17000000 INFO @ Wed, 22 Apr 2020 10:15:35: 11000000 INFO @ Wed, 22 Apr 2020 10:15:38: 8000000 INFO @ Wed, 22 Apr 2020 10:15:40: 18000000 INFO @ Wed, 22 Apr 2020 10:15:43: 12000000 INFO @ Wed, 22 Apr 2020 10:15:45: 9000000 INFO @ Wed, 22 Apr 2020 10:15:47: 19000000 INFO @ Wed, 22 Apr 2020 10:15:50: 13000000 INFO @ Wed, 22 Apr 2020 10:15:52: 10000000 INFO @ Wed, 22 Apr 2020 10:15:54: 20000000 INFO @ Wed, 22 Apr 2020 10:15:58: 14000000 INFO @ Wed, 22 Apr 2020 10:15:59: 11000000 INFO @ Wed, 22 Apr 2020 10:16:01: 21000000 INFO @ Wed, 22 Apr 2020 10:16:05: 15000000 INFO @ Wed, 22 Apr 2020 10:16:06: 12000000 INFO @ Wed, 22 Apr 2020 10:16:08: 22000000 INFO @ Wed, 22 Apr 2020 10:16:13: 16000000 INFO @ Wed, 22 Apr 2020 10:16:13: 13000000 INFO @ Wed, 22 Apr 2020 10:16:15: 23000000 INFO @ Wed, 22 Apr 2020 10:16:20: 14000000 INFO @ Wed, 22 Apr 2020 10:16:20: 17000000 INFO @ Wed, 22 Apr 2020 10:16:22: 24000000 INFO @ Wed, 22 Apr 2020 10:16:27: 15000000 INFO @ Wed, 22 Apr 2020 10:16:28: 18000000 INFO @ Wed, 22 Apr 2020 10:16:29: 25000000 INFO @ Wed, 22 Apr 2020 10:16:34: 16000000 INFO @ Wed, 22 Apr 2020 10:16:36: 19000000 INFO @ Wed, 22 Apr 2020 10:16:36: 26000000 INFO @ Wed, 22 Apr 2020 10:16:41: 17000000 INFO @ Wed, 22 Apr 2020 10:16:43: 20000000 INFO @ Wed, 22 Apr 2020 10:16:43: 27000000 INFO @ Wed, 22 Apr 2020 10:16:48: 18000000 INFO @ Wed, 22 Apr 2020 10:16:50: 28000000 INFO @ Wed, 22 Apr 2020 10:16:51: 21000000 INFO @ Wed, 22 Apr 2020 10:16:55: 19000000 INFO @ Wed, 22 Apr 2020 10:16:57: 29000000 INFO @ Wed, 22 Apr 2020 10:16:59: 22000000 INFO @ Wed, 22 Apr 2020 10:17:02: 20000000 INFO @ Wed, 22 Apr 2020 10:17:05: 30000000 INFO @ Wed, 22 Apr 2020 10:17:06: 23000000 INFO @ Wed, 22 Apr 2020 10:17:09: 21000000 INFO @ Wed, 22 Apr 2020 10:17:11: 31000000 INFO @ Wed, 22 Apr 2020 10:17:14: 24000000 INFO @ Wed, 22 Apr 2020 10:17:16: 22000000 INFO @ Wed, 22 Apr 2020 10:17:19: 32000000 INFO @ Wed, 22 Apr 2020 10:17:21: 25000000 INFO @ Wed, 22 Apr 2020 10:17:23: 23000000 INFO @ Wed, 22 Apr 2020 10:17:26: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:17:29: 26000000 INFO @ Wed, 22 Apr 2020 10:17:30: 24000000 INFO @ Wed, 22 Apr 2020 10:17:33: 34000000 INFO @ Wed, 22 Apr 2020 10:17:36: 27000000 INFO @ Wed, 22 Apr 2020 10:17:37: 25000000 INFO @ Wed, 22 Apr 2020 10:17:40: 35000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:17:44: 28000000 INFO @ Wed, 22 Apr 2020 10:17:44: 26000000 INFO @ Wed, 22 Apr 2020 10:17:47: 36000000 INFO @ Wed, 22 Apr 2020 10:17:51: 27000000 INFO @ Wed, 22 Apr 2020 10:17:52: 29000000 INFO @ Wed, 22 Apr 2020 10:17:54: 37000000 INFO @ Wed, 22 Apr 2020 10:17:58: 28000000 INFO @ Wed, 22 Apr 2020 10:17:59: 30000000 INFO @ Wed, 22 Apr 2020 10:18:01: 38000000 INFO @ Wed, 22 Apr 2020 10:18:05: 29000000 INFO @ Wed, 22 Apr 2020 10:18:07: 31000000 INFO @ Wed, 22 Apr 2020 10:18:08: 39000000 INFO @ Wed, 22 Apr 2020 10:18:12: 30000000 INFO @ Wed, 22 Apr 2020 10:18:14: 32000000 INFO @ Wed, 22 Apr 2020 10:18:15: 40000000 INFO @ Wed, 22 Apr 2020 10:18:19: 31000000 INFO @ Wed, 22 Apr 2020 10:18:21: 41000000 INFO @ Wed, 22 Apr 2020 10:18:21: 33000000 INFO @ Wed, 22 Apr 2020 10:18:26: 32000000 INFO @ Wed, 22 Apr 2020 10:18:28: 42000000 INFO @ Wed, 22 Apr 2020 10:18:28: 34000000 INFO @ Wed, 22 Apr 2020 10:18:32: 33000000 INFO @ Wed, 22 Apr 2020 10:18:35: 43000000 INFO @ Wed, 22 Apr 2020 10:18:35: 35000000 INFO @ Wed, 22 Apr 2020 10:18:39: 34000000 INFO @ Wed, 22 Apr 2020 10:18:41: 44000000 INFO @ Wed, 22 Apr 2020 10:18:42: 36000000 INFO @ Wed, 22 Apr 2020 10:18:46: 35000000 INFO @ Wed, 22 Apr 2020 10:18:48: 45000000 INFO @ Wed, 22 Apr 2020 10:18:49: 37000000 INFO @ Wed, 22 Apr 2020 10:18:52: 36000000 INFO @ Wed, 22 Apr 2020 10:18:55: 46000000 INFO @ Wed, 22 Apr 2020 10:18:56: 38000000 INFO @ Wed, 22 Apr 2020 10:18:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:18:58: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:18:58: #1 total tags in treatment: 23106233 INFO @ Wed, 22 Apr 2020 10:18:58: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:18:58: #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 10:18:59: #1 tags after filtering in treatment: 13547998 INFO @ Wed, 22 Apr 2020 10:18:59: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:18:59: #1 finished! INFO @ Wed, 22 Apr 2020 10:18:59: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:18:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:18:59: 37000000 INFO @ Wed, 22 Apr 2020 10:18:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:18:59: 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 @ Wed, 22 Apr 2020 10:18:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.05_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/SRX7409561/SRX7409561.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:19:03: 39000000 INFO @ Wed, 22 Apr 2020 10:19:05: 38000000 INFO @ Wed, 22 Apr 2020 10:19:10: 40000000 INFO @ Wed, 22 Apr 2020 10:19:12: 39000000 INFO @ Wed, 22 Apr 2020 10:19:17: 41000000 INFO @ Wed, 22 Apr 2020 10:19:18: 40000000 INFO @ Wed, 22 Apr 2020 10:19:24: 42000000 INFO @ Wed, 22 Apr 2020 10:19:25: 41000000 INFO @ Wed, 22 Apr 2020 10:19:31: 42000000 INFO @ Wed, 22 Apr 2020 10:19:31: 43000000 INFO @ Wed, 22 Apr 2020 10:19:38: 43000000 INFO @ Wed, 22 Apr 2020 10:19:38: 44000000 INFO @ Wed, 22 Apr 2020 10:19:44: 44000000 INFO @ Wed, 22 Apr 2020 10:19:45: 45000000 INFO @ Wed, 22 Apr 2020 10:19:51: 45000000 INFO @ Wed, 22 Apr 2020 10:19:52: 46000000 INFO @ Wed, 22 Apr 2020 10:19:55: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:19:55: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:19:55: #1 total tags in treatment: 23106233 INFO @ Wed, 22 Apr 2020 10:19:55: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:19:55: #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 10:19:56: #1 tags after filtering in treatment: 13547998 INFO @ Wed, 22 Apr 2020 10:19:56: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:19:56: #1 finished! INFO @ Wed, 22 Apr 2020 10:19:56: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:19:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:19:57: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:19:57: 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 10:19:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.10_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/SRX7409561/SRX7409561.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:19:57: 46000000 INFO @ Wed, 22 Apr 2020 10:20:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:20:00: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:20:00: #1 total tags in treatment: 23106233 INFO @ Wed, 22 Apr 2020 10:20:00: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:20:00: #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 10:20:00: #1 tags after filtering in treatment: 13547998 INFO @ Wed, 22 Apr 2020 10:20:00: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:20:00: #1 finished! INFO @ Wed, 22 Apr 2020 10:20:00: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:20:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:20:01: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:20:01: 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 10:20:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.20_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/SRX7409561/SRX7409561.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409561/SRX7409561.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling