Job ID = 5791287 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 35,338,959 reads read : 70,677,918 reads written : 70,677,918 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: 00:17:57 35338959 reads; of these: 35338959 (100.00%) were paired; of these: 1008925 (2.85%) aligned concordantly 0 times 30399875 (86.02%) aligned concordantly exactly 1 time 3930159 (11.12%) aligned concordantly >1 times ---- 1008925 pairs aligned concordantly 0 times; of these: 49512 (4.91%) aligned discordantly 1 time ---- 959413 pairs aligned 0 times concordantly or discordantly; of these: 1918826 mates make up the pairs; of these: 1690135 (88.08%) aligned 0 times 183017 (9.54%) aligned exactly 1 time 45674 (2.38%) aligned >1 times 97.61% overall alignment rate Time searching: 00:17:57 Overall time: 00:17:57 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] 11670263 / 34337339 = 0.3399 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 10:10:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.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 10:10:21: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:10:21: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:10:26: 1000000 INFO @ Wed, 22 Apr 2020 10:10:31: 2000000 INFO @ Wed, 22 Apr 2020 10:10:36: 3000000 INFO @ Wed, 22 Apr 2020 10:10:41: 4000000 INFO @ Wed, 22 Apr 2020 10:10:46: 5000000 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 10:10:51: 6000000 INFO @ Wed, 22 Apr 2020 10:10:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.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 10:10:51: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:10:51: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:10:56: 7000000 INFO @ Wed, 22 Apr 2020 10:10:57: 1000000 INFO @ Wed, 22 Apr 2020 10:11:02: 8000000 INFO @ Wed, 22 Apr 2020 10:11:02: 2000000 INFO @ Wed, 22 Apr 2020 10:11:08: 9000000 INFO @ Wed, 22 Apr 2020 10:11:08: 3000000 INFO @ Wed, 22 Apr 2020 10:11:13: 10000000 INFO @ Wed, 22 Apr 2020 10:11:13: 4000000 INFO @ Wed, 22 Apr 2020 10:11:19: 11000000 INFO @ Wed, 22 Apr 2020 10:11:19: 5000000 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 10:11:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.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 10:11:21: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:11:21: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:11:25: 12000000 INFO @ Wed, 22 Apr 2020 10:11:25: 6000000 INFO @ Wed, 22 Apr 2020 10:11:27: 1000000 INFO @ Wed, 22 Apr 2020 10:11:30: 13000000 INFO @ Wed, 22 Apr 2020 10:11:31: 7000000 INFO @ Wed, 22 Apr 2020 10:11:33: 2000000 INFO @ Wed, 22 Apr 2020 10:11:36: 14000000 INFO @ Wed, 22 Apr 2020 10:11:36: 8000000 INFO @ Wed, 22 Apr 2020 10:11:38: 3000000 INFO @ Wed, 22 Apr 2020 10:11:42: 15000000 INFO @ Wed, 22 Apr 2020 10:11:42: 9000000 INFO @ Wed, 22 Apr 2020 10:11:44: 4000000 INFO @ Wed, 22 Apr 2020 10:11:48: 16000000 INFO @ Wed, 22 Apr 2020 10:11:48: 10000000 INFO @ Wed, 22 Apr 2020 10:11:50: 5000000 INFO @ Wed, 22 Apr 2020 10:11:53: 17000000 INFO @ Wed, 22 Apr 2020 10:11:54: 11000000 INFO @ Wed, 22 Apr 2020 10:11:56: 6000000 INFO @ Wed, 22 Apr 2020 10:11:59: 18000000 INFO @ Wed, 22 Apr 2020 10:12:00: 12000000 INFO @ Wed, 22 Apr 2020 10:12:02: 7000000 INFO @ Wed, 22 Apr 2020 10:12:05: 19000000 INFO @ Wed, 22 Apr 2020 10:12:05: 13000000 INFO @ Wed, 22 Apr 2020 10:12:07: 8000000 INFO @ Wed, 22 Apr 2020 10:12:10: 20000000 INFO @ Wed, 22 Apr 2020 10:12:11: 14000000 INFO @ Wed, 22 Apr 2020 10:12:13: 9000000 INFO @ Wed, 22 Apr 2020 10:12:16: 21000000 INFO @ Wed, 22 Apr 2020 10:12:17: 15000000 INFO @ Wed, 22 Apr 2020 10:12:19: 10000000 INFO @ Wed, 22 Apr 2020 10:12:22: 22000000 INFO @ Wed, 22 Apr 2020 10:12:23: 16000000 INFO @ Wed, 22 Apr 2020 10:12:25: 11000000 INFO @ Wed, 22 Apr 2020 10:12:27: 23000000 INFO @ Wed, 22 Apr 2020 10:12:29: 17000000 INFO @ Wed, 22 Apr 2020 10:12:31: 12000000 INFO @ Wed, 22 Apr 2020 10:12:33: 24000000 INFO @ Wed, 22 Apr 2020 10:12:35: 18000000 INFO @ Wed, 22 Apr 2020 10:12:36: 13000000 INFO @ Wed, 22 Apr 2020 10:12:39: 25000000 INFO @ Wed, 22 Apr 2020 10:12:40: 19000000 INFO @ Wed, 22 Apr 2020 10:12:42: 14000000 INFO @ Wed, 22 Apr 2020 10:12:44: 26000000 INFO @ Wed, 22 Apr 2020 10:12:46: 20000000 INFO @ Wed, 22 Apr 2020 10:12:48: 15000000 INFO @ Wed, 22 Apr 2020 10:12:50: 27000000 INFO @ Wed, 22 Apr 2020 10:12:52: 21000000 INFO @ Wed, 22 Apr 2020 10:12:54: 16000000 INFO @ Wed, 22 Apr 2020 10:12:56: 28000000 INFO @ Wed, 22 Apr 2020 10:12:58: 22000000 INFO @ Wed, 22 Apr 2020 10:13:00: 17000000 INFO @ Wed, 22 Apr 2020 10:13:01: 29000000 INFO @ Wed, 22 Apr 2020 10:13:04: 23000000 INFO @ Wed, 22 Apr 2020 10:13:05: 18000000 INFO @ Wed, 22 Apr 2020 10:13:07: 30000000 INFO @ Wed, 22 Apr 2020 10:13:09: 24000000 INFO @ Wed, 22 Apr 2020 10:13:11: 19000000 INFO @ Wed, 22 Apr 2020 10:13:13: 31000000 INFO @ Wed, 22 Apr 2020 10:13:15: 25000000 INFO @ Wed, 22 Apr 2020 10:13:17: 20000000 INFO @ Wed, 22 Apr 2020 10:13:19: 32000000 INFO @ Wed, 22 Apr 2020 10:13:21: 26000000 INFO @ Wed, 22 Apr 2020 10:13:23: 21000000 INFO @ Wed, 22 Apr 2020 10:13:24: 33000000 INFO @ Wed, 22 Apr 2020 10:13:27: 27000000 INFO @ Wed, 22 Apr 2020 10:13:29: 22000000 INFO @ Wed, 22 Apr 2020 10:13:30: 34000000 INFO @ Wed, 22 Apr 2020 10:13:32: 28000000 INFO @ Wed, 22 Apr 2020 10:13:34: 23000000 INFO @ Wed, 22 Apr 2020 10:13:36: 35000000 INFO @ Wed, 22 Apr 2020 10:13:38: 29000000 INFO @ Wed, 22 Apr 2020 10:13:40: 24000000 INFO @ Wed, 22 Apr 2020 10:13:42: 36000000 INFO @ Wed, 22 Apr 2020 10:13:44: 30000000 INFO @ Wed, 22 Apr 2020 10:13:46: 25000000 INFO @ Wed, 22 Apr 2020 10:13:47: 37000000 INFO @ Wed, 22 Apr 2020 10:13:50: 31000000 INFO @ Wed, 22 Apr 2020 10:13:52: 26000000 INFO @ Wed, 22 Apr 2020 10:13:53: 38000000 INFO @ Wed, 22 Apr 2020 10:13:55: 32000000 INFO @ Wed, 22 Apr 2020 10:13:57: 27000000 INFO @ Wed, 22 Apr 2020 10:13:59: 39000000 INFO @ Wed, 22 Apr 2020 10:14:01: 33000000 INFO @ Wed, 22 Apr 2020 10:14:03: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:14:04: 40000000 INFO @ Wed, 22 Apr 2020 10:14:07: 34000000 INFO @ Wed, 22 Apr 2020 10:14:09: 29000000 INFO @ Wed, 22 Apr 2020 10:14:10: 41000000 INFO @ Wed, 22 Apr 2020 10:14:13: 35000000 INFO @ Wed, 22 Apr 2020 10:14:15: 30000000 INFO @ Wed, 22 Apr 2020 10:14:16: 42000000 INFO @ Wed, 22 Apr 2020 10:14:18: 36000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:14:21: 31000000 INFO @ Wed, 22 Apr 2020 10:14:21: 43000000 INFO @ Wed, 22 Apr 2020 10:14:24: 37000000 INFO @ Wed, 22 Apr 2020 10:14:26: 32000000 INFO @ Wed, 22 Apr 2020 10:14:27: 44000000 INFO @ Wed, 22 Apr 2020 10:14:30: 38000000 INFO @ Wed, 22 Apr 2020 10:14:32: 33000000 INFO @ Wed, 22 Apr 2020 10:14:33: 45000000 INFO @ Wed, 22 Apr 2020 10:14:36: 39000000 INFO @ Wed, 22 Apr 2020 10:14:36: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:14:36: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:14:36: #1 total tags in treatment: 22662438 INFO @ Wed, 22 Apr 2020 10:14:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:14:36: #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 10:14:37: #1 tags after filtering in treatment: 13320075 INFO @ Wed, 22 Apr 2020 10:14:37: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:14:37: #1 finished! INFO @ Wed, 22 Apr 2020 10:14:37: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:14:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:14:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:14:38: 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 10:14:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.05_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/SRX7409546/SRX7409546.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:14:38: 34000000 INFO @ Wed, 22 Apr 2020 10:14:41: 40000000 INFO @ Wed, 22 Apr 2020 10:14:44: 35000000 INFO @ Wed, 22 Apr 2020 10:14:47: 41000000 INFO @ Wed, 22 Apr 2020 10:14:49: 36000000 INFO @ Wed, 22 Apr 2020 10:14:53: 42000000 INFO @ Wed, 22 Apr 2020 10:14:55: 37000000 INFO @ Wed, 22 Apr 2020 10:14:58: 43000000 INFO @ Wed, 22 Apr 2020 10:15:00: 38000000 INFO @ Wed, 22 Apr 2020 10:15:04: 44000000 INFO @ Wed, 22 Apr 2020 10:15:06: 39000000 INFO @ Wed, 22 Apr 2020 10:15:10: 45000000 INFO @ Wed, 22 Apr 2020 10:15:12: 40000000 INFO @ Wed, 22 Apr 2020 10:15:13: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:15:13: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:15:13: #1 total tags in treatment: 22662438 INFO @ Wed, 22 Apr 2020 10:15:13: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:15:13: #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 10:15:14: #1 tags after filtering in treatment: 13320075 INFO @ Wed, 22 Apr 2020 10:15:14: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:15:14: #1 finished! INFO @ Wed, 22 Apr 2020 10:15:14: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:15:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:15:14: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:15:14: 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 10:15:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.10_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/SRX7409546/SRX7409546.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:15:17: 41000000 INFO @ Wed, 22 Apr 2020 10:15:22: 42000000 INFO @ Wed, 22 Apr 2020 10:15:27: 43000000 INFO @ Wed, 22 Apr 2020 10:15:33: 44000000 INFO @ Wed, 22 Apr 2020 10:15:38: 45000000 INFO @ Wed, 22 Apr 2020 10:15:41: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:15:41: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:15:41: #1 total tags in treatment: 22662438 INFO @ Wed, 22 Apr 2020 10:15:41: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:15:41: #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 10:15:42: #1 tags after filtering in treatment: 13320075 INFO @ Wed, 22 Apr 2020 10:15:42: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:15:42: #1 finished! INFO @ Wed, 22 Apr 2020 10:15:42: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:15:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:15:42: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:15:42: 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 10:15:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.20_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/SRX7409546/SRX7409546.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409546/SRX7409546.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling