Job ID = 5791626 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 33,794,930 reads read : 67,589,860 reads written : 67,589,860 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: 00:16:18 33794930 reads; of these: 33794930 (100.00%) were paired; of these: 2802142 (8.29%) aligned concordantly 0 times 27264803 (80.68%) aligned concordantly exactly 1 time 3727985 (11.03%) aligned concordantly >1 times ---- 2802142 pairs aligned concordantly 0 times; of these: 67454 (2.41%) aligned discordantly 1 time ---- 2734688 pairs aligned 0 times concordantly or discordantly; of these: 5469376 mates make up the pairs; of these: 5169228 (94.51%) aligned 0 times 235685 (4.31%) aligned exactly 1 time 64463 (1.18%) aligned >1 times 92.35% overall alignment rate Time searching: 00:16:18 Overall time: 00:16:18 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] 17573829 / 31020419 = 0.5665 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 10:27:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.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 10:27:37: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:27:37: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:27:42: 1000000 INFO @ Wed, 22 Apr 2020 10:27:47: 2000000 INFO @ Wed, 22 Apr 2020 10:27:52: 3000000 INFO @ Wed, 22 Apr 2020 10:27:56: 4000000 INFO @ Wed, 22 Apr 2020 10:28:01: 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 10:28:06: 6000000 INFO @ Wed, 22 Apr 2020 10:28:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.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 10:28:07: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:28:07: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:28:12: 7000000 INFO @ Wed, 22 Apr 2020 10:28:13: 1000000 INFO @ Wed, 22 Apr 2020 10:28:18: 8000000 INFO @ Wed, 22 Apr 2020 10:28:19: 2000000 INFO @ Wed, 22 Apr 2020 10:28:23: 9000000 INFO @ Wed, 22 Apr 2020 10:28:24: 3000000 INFO @ Wed, 22 Apr 2020 10:28:29: 10000000 INFO @ Wed, 22 Apr 2020 10:28:31: 4000000 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 10:28:35: 11000000 INFO @ Wed, 22 Apr 2020 10:28:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.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 10:28:37: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:28:37: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:28:37: 5000000 INFO @ Wed, 22 Apr 2020 10:28:41: 12000000 INFO @ Wed, 22 Apr 2020 10:28:43: 1000000 INFO @ Wed, 22 Apr 2020 10:28:43: 6000000 INFO @ Wed, 22 Apr 2020 10:28:47: 13000000 INFO @ Wed, 22 Apr 2020 10:28:49: 2000000 INFO @ Wed, 22 Apr 2020 10:28:49: 7000000 INFO @ Wed, 22 Apr 2020 10:28:53: 14000000 INFO @ Wed, 22 Apr 2020 10:28:54: 3000000 INFO @ Wed, 22 Apr 2020 10:28:55: 8000000 INFO @ Wed, 22 Apr 2020 10:28:58: 15000000 INFO @ Wed, 22 Apr 2020 10:29:00: 9000000 INFO @ Wed, 22 Apr 2020 10:29:00: 4000000 INFO @ Wed, 22 Apr 2020 10:29:04: 16000000 INFO @ Wed, 22 Apr 2020 10:29:06: 10000000 INFO @ Wed, 22 Apr 2020 10:29:06: 5000000 INFO @ Wed, 22 Apr 2020 10:29:10: 17000000 INFO @ Wed, 22 Apr 2020 10:29:11: 11000000 INFO @ Wed, 22 Apr 2020 10:29:12: 6000000 INFO @ Wed, 22 Apr 2020 10:29:15: 18000000 INFO @ Wed, 22 Apr 2020 10:29:17: 12000000 INFO @ Wed, 22 Apr 2020 10:29:17: 7000000 INFO @ Wed, 22 Apr 2020 10:29:21: 19000000 INFO @ Wed, 22 Apr 2020 10:29:23: 13000000 INFO @ Wed, 22 Apr 2020 10:29:23: 8000000 INFO @ Wed, 22 Apr 2020 10:29:26: 20000000 INFO @ Wed, 22 Apr 2020 10:29:28: 14000000 INFO @ Wed, 22 Apr 2020 10:29:28: 9000000 INFO @ Wed, 22 Apr 2020 10:29:32: 21000000 INFO @ Wed, 22 Apr 2020 10:29:33: 15000000 INFO @ Wed, 22 Apr 2020 10:29:34: 10000000 INFO @ Wed, 22 Apr 2020 10:29:37: 22000000 INFO @ Wed, 22 Apr 2020 10:29:39: 16000000 INFO @ Wed, 22 Apr 2020 10:29:40: 11000000 INFO @ Wed, 22 Apr 2020 10:29:43: 23000000 INFO @ Wed, 22 Apr 2020 10:29:44: 17000000 INFO @ Wed, 22 Apr 2020 10:29:45: 12000000 INFO @ Wed, 22 Apr 2020 10:29:48: 24000000 INFO @ Wed, 22 Apr 2020 10:29:50: 18000000 INFO @ Wed, 22 Apr 2020 10:29:51: 13000000 INFO @ Wed, 22 Apr 2020 10:29:54: 25000000 INFO @ Wed, 22 Apr 2020 10:29:55: 19000000 INFO @ Wed, 22 Apr 2020 10:29:56: 14000000 INFO @ Wed, 22 Apr 2020 10:30:00: 26000000 INFO @ Wed, 22 Apr 2020 10:30:01: 20000000 INFO @ Wed, 22 Apr 2020 10:30:02: 15000000 INFO @ Wed, 22 Apr 2020 10:30:05: 27000000 INFO @ Wed, 22 Apr 2020 10:30:06: 21000000 INFO @ Wed, 22 Apr 2020 10:30:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:30:07: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:30:07: #1 total tags in treatment: 13424311 INFO @ Wed, 22 Apr 2020 10:30:07: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:30:07: #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 10:30:07: #1 tags after filtering in treatment: 9300025 INFO @ Wed, 22 Apr 2020 10:30:07: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Apr 2020 10:30:07: #1 finished! INFO @ Wed, 22 Apr 2020 10:30:07: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:30:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:30:07: 16000000 INFO @ Wed, 22 Apr 2020 10:30:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:30:08: 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 10:30:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.05_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/SRX7409594/SRX7409594.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:30:12: 22000000 INFO @ Wed, 22 Apr 2020 10:30:13: 17000000 INFO @ Wed, 22 Apr 2020 10:30:17: 23000000 INFO @ Wed, 22 Apr 2020 10:30:18: 18000000 INFO @ Wed, 22 Apr 2020 10:30:23: 24000000 INFO @ Wed, 22 Apr 2020 10:30:24: 19000000 INFO @ Wed, 22 Apr 2020 10:30:28: 25000000 INFO @ Wed, 22 Apr 2020 10:30:29: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:30:33: 26000000 INFO @ Wed, 22 Apr 2020 10:30:35: 21000000 INFO @ Wed, 22 Apr 2020 10:30:39: 27000000 INFO @ Wed, 22 Apr 2020 10:30:40: 22000000 INFO @ Wed, 22 Apr 2020 10:30:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:30:40: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:30:40: #1 total tags in treatment: 13424311 INFO @ Wed, 22 Apr 2020 10:30:40: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:30:40: #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 10:30:40: #1 tags after filtering in treatment: 9300025 INFO @ Wed, 22 Apr 2020 10:30:40: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Apr 2020 10:30:40: #1 finished! INFO @ Wed, 22 Apr 2020 10:30:40: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:30:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:30:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:30:41: 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 10:30:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.10_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/SRX7409594/SRX7409594.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:30:45: 23000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:30:50: 24000000 INFO @ Wed, 22 Apr 2020 10:30:56: 25000000 INFO @ Wed, 22 Apr 2020 10:31:01: 26000000 INFO @ Wed, 22 Apr 2020 10:31:06: 27000000 INFO @ Wed, 22 Apr 2020 10:31:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:31:07: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:31:07: #1 total tags in treatment: 13424311 INFO @ Wed, 22 Apr 2020 10:31:07: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:31:07: #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 10:31:08: #1 tags after filtering in treatment: 9300025 INFO @ Wed, 22 Apr 2020 10:31:08: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Apr 2020 10:31:08: #1 finished! INFO @ Wed, 22 Apr 2020 10:31:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:31:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:31:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:31:08: 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 10:31:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.20_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/SRX7409594/SRX7409594.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409594/SRX7409594.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling