Job ID = 5791293 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 38,521,559 reads read : 77,043,118 reads written : 77,043,118 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: 00:21:10 38521559 reads; of these: 38521559 (100.00%) were paired; of these: 1258037 (3.27%) aligned concordantly 0 times 32902842 (85.41%) aligned concordantly exactly 1 time 4360680 (11.32%) aligned concordantly >1 times ---- 1258037 pairs aligned concordantly 0 times; of these: 76642 (6.09%) aligned discordantly 1 time ---- 1181395 pairs aligned 0 times concordantly or discordantly; of these: 2362790 mates make up the pairs; of these: 1759296 (74.46%) aligned 0 times 508329 (21.51%) aligned exactly 1 time 95165 (4.03%) aligned >1 times 97.72% overall alignment rate Time searching: 00:21:10 Overall time: 00:21:10 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 32 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] 13797581 / 37287509 = 0.3700 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 10:17:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.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 10:17:35: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:17:35: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:17:41: 1000000 INFO @ Wed, 22 Apr 2020 10:17:48: 2000000 INFO @ Wed, 22 Apr 2020 10:17:53: 3000000 INFO @ Wed, 22 Apr 2020 10:17:58: 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 10:18:04: 5000000 INFO @ Wed, 22 Apr 2020 10:18:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.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 10:18:05: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:18:05: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:18:09: 6000000 INFO @ Wed, 22 Apr 2020 10:18:10: 1000000 INFO @ Wed, 22 Apr 2020 10:18:16: 7000000 INFO @ Wed, 22 Apr 2020 10:18:16: 2000000 INFO @ Wed, 22 Apr 2020 10:18:21: 8000000 INFO @ Wed, 22 Apr 2020 10:18:22: 3000000 INFO @ Wed, 22 Apr 2020 10:18:27: 9000000 INFO @ Wed, 22 Apr 2020 10:18:27: 4000000 INFO @ Wed, 22 Apr 2020 10:18:32: 5000000 INFO @ Wed, 22 Apr 2020 10:18:33: 10000000 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 10:18:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.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 10:18:35: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:18:35: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:18:38: 6000000 INFO @ Wed, 22 Apr 2020 10:18:38: 11000000 INFO @ Wed, 22 Apr 2020 10:18:40: 1000000 INFO @ Wed, 22 Apr 2020 10:18:44: 7000000 INFO @ Wed, 22 Apr 2020 10:18:44: 12000000 INFO @ Wed, 22 Apr 2020 10:18:46: 2000000 INFO @ Wed, 22 Apr 2020 10:18:49: 8000000 INFO @ Wed, 22 Apr 2020 10:18:50: 13000000 INFO @ Wed, 22 Apr 2020 10:18:52: 3000000 INFO @ Wed, 22 Apr 2020 10:18:54: 9000000 INFO @ Wed, 22 Apr 2020 10:18:56: 14000000 INFO @ Wed, 22 Apr 2020 10:18:57: 4000000 INFO @ Wed, 22 Apr 2020 10:19:00: 10000000 INFO @ Wed, 22 Apr 2020 10:19:02: 15000000 INFO @ Wed, 22 Apr 2020 10:19:03: 5000000 INFO @ Wed, 22 Apr 2020 10:19:06: 11000000 INFO @ Wed, 22 Apr 2020 10:19:08: 16000000 INFO @ Wed, 22 Apr 2020 10:19:09: 6000000 INFO @ Wed, 22 Apr 2020 10:19:11: 12000000 INFO @ Wed, 22 Apr 2020 10:19:14: 17000000 INFO @ Wed, 22 Apr 2020 10:19:15: 7000000 INFO @ Wed, 22 Apr 2020 10:19:17: 13000000 INFO @ Wed, 22 Apr 2020 10:19:20: 18000000 INFO @ Wed, 22 Apr 2020 10:19:20: 8000000 INFO @ Wed, 22 Apr 2020 10:19:23: 14000000 INFO @ Wed, 22 Apr 2020 10:19:26: 19000000 INFO @ Wed, 22 Apr 2020 10:19:26: 9000000 INFO @ Wed, 22 Apr 2020 10:19:28: 15000000 INFO @ Wed, 22 Apr 2020 10:19:31: 20000000 INFO @ Wed, 22 Apr 2020 10:19:32: 10000000 INFO @ Wed, 22 Apr 2020 10:19:34: 16000000 INFO @ Wed, 22 Apr 2020 10:19:37: 21000000 INFO @ Wed, 22 Apr 2020 10:19:38: 11000000 INFO @ Wed, 22 Apr 2020 10:19:40: 17000000 INFO @ Wed, 22 Apr 2020 10:19:42: 22000000 INFO @ Wed, 22 Apr 2020 10:19:44: 12000000 INFO @ Wed, 22 Apr 2020 10:19:45: 18000000 INFO @ Wed, 22 Apr 2020 10:19:48: 23000000 INFO @ Wed, 22 Apr 2020 10:19:50: 13000000 INFO @ Wed, 22 Apr 2020 10:19:51: 19000000 INFO @ Wed, 22 Apr 2020 10:19:54: 24000000 INFO @ Wed, 22 Apr 2020 10:19:56: 14000000 INFO @ Wed, 22 Apr 2020 10:19:56: 20000000 INFO @ Wed, 22 Apr 2020 10:20:00: 25000000 INFO @ Wed, 22 Apr 2020 10:20:01: 21000000 INFO @ Wed, 22 Apr 2020 10:20:02: 15000000 INFO @ Wed, 22 Apr 2020 10:20:05: 26000000 INFO @ Wed, 22 Apr 2020 10:20:07: 22000000 INFO @ Wed, 22 Apr 2020 10:20:08: 16000000 INFO @ Wed, 22 Apr 2020 10:20:11: 27000000 INFO @ Wed, 22 Apr 2020 10:20:13: 23000000 INFO @ Wed, 22 Apr 2020 10:20:14: 17000000 INFO @ Wed, 22 Apr 2020 10:20:17: 28000000 INFO @ Wed, 22 Apr 2020 10:20:18: 24000000 INFO @ Wed, 22 Apr 2020 10:20:20: 18000000 INFO @ Wed, 22 Apr 2020 10:20:23: 29000000 INFO @ Wed, 22 Apr 2020 10:20:24: 25000000 INFO @ Wed, 22 Apr 2020 10:20:25: 19000000 INFO @ Wed, 22 Apr 2020 10:20:28: 30000000 INFO @ Wed, 22 Apr 2020 10:20:29: 26000000 INFO @ Wed, 22 Apr 2020 10:20:31: 20000000 INFO @ Wed, 22 Apr 2020 10:20:34: 31000000 INFO @ Wed, 22 Apr 2020 10:20:35: 27000000 INFO @ Wed, 22 Apr 2020 10:20:36: 21000000 INFO @ Wed, 22 Apr 2020 10:20:40: 32000000 INFO @ Wed, 22 Apr 2020 10:20:40: 28000000 INFO @ Wed, 22 Apr 2020 10:20:42: 22000000 INFO @ Wed, 22 Apr 2020 10:20:46: 29000000 INFO @ Wed, 22 Apr 2020 10:20:47: 33000000 INFO @ Wed, 22 Apr 2020 10:20:47: 23000000 INFO @ Wed, 22 Apr 2020 10:20:51: 30000000 INFO @ Wed, 22 Apr 2020 10:20:52: 34000000 INFO @ Wed, 22 Apr 2020 10:20:53: 24000000 INFO @ Wed, 22 Apr 2020 10:20:57: 31000000 INFO @ Wed, 22 Apr 2020 10:20:58: 35000000 INFO @ Wed, 22 Apr 2020 10:20:59: 25000000 INFO @ Wed, 22 Apr 2020 10:21:02: 32000000 INFO @ Wed, 22 Apr 2020 10:21:04: 26000000 INFO @ Wed, 22 Apr 2020 10:21:04: 36000000 INFO @ Wed, 22 Apr 2020 10:21:08: 33000000 INFO @ Wed, 22 Apr 2020 10:21:10: 27000000 INFO @ Wed, 22 Apr 2020 10:21:10: 37000000 INFO @ Wed, 22 Apr 2020 10:21:14: 34000000 INFO @ Wed, 22 Apr 2020 10:21:15: 28000000 INFO @ Wed, 22 Apr 2020 10:21:16: 38000000 INFO @ Wed, 22 Apr 2020 10:21:20: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:21:21: 29000000 INFO @ Wed, 22 Apr 2020 10:21:22: 39000000 INFO @ Wed, 22 Apr 2020 10:21:26: 30000000 INFO @ Wed, 22 Apr 2020 10:21:26: 36000000 INFO @ Wed, 22 Apr 2020 10:21:28: 40000000 INFO @ Wed, 22 Apr 2020 10:21:32: 31000000 INFO @ Wed, 22 Apr 2020 10:21:32: 37000000 INFO @ Wed, 22 Apr 2020 10:21:34: 41000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:21:37: 32000000 INFO @ Wed, 22 Apr 2020 10:21:38: 38000000 INFO @ Wed, 22 Apr 2020 10:21:40: 42000000 INFO @ Wed, 22 Apr 2020 10:21:43: 33000000 INFO @ Wed, 22 Apr 2020 10:21:44: 39000000 INFO @ Wed, 22 Apr 2020 10:21:46: 43000000 INFO @ Wed, 22 Apr 2020 10:21:49: 34000000 INFO @ Wed, 22 Apr 2020 10:21:50: 40000000 INFO @ Wed, 22 Apr 2020 10:21:52: 44000000 INFO @ Wed, 22 Apr 2020 10:21:55: 35000000 INFO @ Wed, 22 Apr 2020 10:21:56: 41000000 INFO @ Wed, 22 Apr 2020 10:21:58: 45000000 INFO @ Wed, 22 Apr 2020 10:22:01: 36000000 INFO @ Wed, 22 Apr 2020 10:22:02: 42000000 INFO @ Wed, 22 Apr 2020 10:22:04: 46000000 INFO @ Wed, 22 Apr 2020 10:22:06: 37000000 INFO @ Wed, 22 Apr 2020 10:22:08: 43000000 INFO @ Wed, 22 Apr 2020 10:22:10: 47000000 INFO @ Wed, 22 Apr 2020 10:22:12: 38000000 INFO @ Wed, 22 Apr 2020 10:22:14: 44000000 INFO @ Wed, 22 Apr 2020 10:22:14: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:22:14: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:22:14: #1 total tags in treatment: 23474174 INFO @ Wed, 22 Apr 2020 10:22:14: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:22:14: #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 10:22:15: #1 tags after filtering in treatment: 13572511 INFO @ Wed, 22 Apr 2020 10:22:15: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 10:22:15: #1 finished! INFO @ Wed, 22 Apr 2020 10:22:15: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:22:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:22:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:22:15: 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 10:22:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.05_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/SRX7409552/SRX7409552.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:22:18: 39000000 INFO @ Wed, 22 Apr 2020 10:22:20: 45000000 INFO @ Wed, 22 Apr 2020 10:22:24: 40000000 INFO @ Wed, 22 Apr 2020 10:22:26: 46000000 INFO @ Wed, 22 Apr 2020 10:22:30: 41000000 INFO @ Wed, 22 Apr 2020 10:22:32: 47000000 INFO @ Wed, 22 Apr 2020 10:22:35: 42000000 INFO @ Wed, 22 Apr 2020 10:22:36: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:22:36: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:22:36: #1 total tags in treatment: 23474174 INFO @ Wed, 22 Apr 2020 10:22:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:22:36: #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 10:22:37: #1 tags after filtering in treatment: 13572511 INFO @ Wed, 22 Apr 2020 10:22:37: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 10:22:37: #1 finished! INFO @ Wed, 22 Apr 2020 10:22:37: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:22:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:22:37: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:22:37: 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 10:22:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.10_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/SRX7409552/SRX7409552.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:22:41: 43000000 INFO @ Wed, 22 Apr 2020 10:22:47: 44000000 INFO @ Wed, 22 Apr 2020 10:22:52: 45000000 INFO @ Wed, 22 Apr 2020 10:22:58: 46000000 INFO @ Wed, 22 Apr 2020 10:23:03: 47000000 INFO @ Wed, 22 Apr 2020 10:23:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:23:07: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:23:07: #1 total tags in treatment: 23474174 INFO @ Wed, 22 Apr 2020 10:23:07: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:23:07: #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 10:23:08: #1 tags after filtering in treatment: 13572511 INFO @ Wed, 22 Apr 2020 10:23:08: #1 Redundant rate of treatment: 0.42 INFO @ Wed, 22 Apr 2020 10:23:08: #1 finished! INFO @ Wed, 22 Apr 2020 10:23:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:23:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:23:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:23:08: 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 10:23:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.20_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/SRX7409552/SRX7409552.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409552/SRX7409552.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling