Job ID = 5791656 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 23,973,815 reads read : 47,947,630 reads written : 47,947,630 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: 00:12:19 23973815 reads; of these: 23973815 (100.00%) were paired; of these: 2187499 (9.12%) aligned concordantly 0 times 19667419 (82.04%) aligned concordantly exactly 1 time 2118897 (8.84%) aligned concordantly >1 times ---- 2187499 pairs aligned concordantly 0 times; of these: 22758 (1.04%) aligned discordantly 1 time ---- 2164741 pairs aligned 0 times concordantly or discordantly; of these: 4329482 mates make up the pairs; of these: 4128891 (95.37%) aligned 0 times 168335 (3.89%) aligned exactly 1 time 32256 (0.75%) aligned >1 times 91.39% overall alignment rate Time searching: 00:12:19 Overall time: 00:12:19 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 20 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] 3000250 / 21790679 = 0.1377 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 10:44:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.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 10:44:41: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:44:41: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:44:45: 1000000 INFO @ Wed, 22 Apr 2020 10:44:49: 2000000 INFO @ Wed, 22 Apr 2020 10:44:54: 3000000 INFO @ Wed, 22 Apr 2020 10:44:58: 4000000 INFO @ Wed, 22 Apr 2020 10:45:02: 5000000 INFO @ Wed, 22 Apr 2020 10:45:07: 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 10:45:11: 7000000 INFO @ Wed, 22 Apr 2020 10:45:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.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 10:45:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:45:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:45:16: 8000000 INFO @ Wed, 22 Apr 2020 10:45:16: 1000000 INFO @ Wed, 22 Apr 2020 10:45:20: 9000000 INFO @ Wed, 22 Apr 2020 10:45:21: 2000000 INFO @ Wed, 22 Apr 2020 10:45:25: 10000000 INFO @ Wed, 22 Apr 2020 10:45:25: 3000000 INFO @ Wed, 22 Apr 2020 10:45:30: 11000000 INFO @ Wed, 22 Apr 2020 10:45:30: 4000000 INFO @ Wed, 22 Apr 2020 10:45:34: 12000000 INFO @ Wed, 22 Apr 2020 10:45:35: 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 10:45:39: 13000000 INFO @ Wed, 22 Apr 2020 10:45:40: 6000000 INFO @ Wed, 22 Apr 2020 10:45:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.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 10:45:41: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:45:41: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:45:44: 14000000 INFO @ Wed, 22 Apr 2020 10:45:44: 7000000 INFO @ Wed, 22 Apr 2020 10:45:46: 1000000 INFO @ Wed, 22 Apr 2020 10:45:49: 15000000 INFO @ Wed, 22 Apr 2020 10:45:49: 8000000 INFO @ Wed, 22 Apr 2020 10:45:51: 2000000 INFO @ Wed, 22 Apr 2020 10:45:54: 16000000 INFO @ Wed, 22 Apr 2020 10:45:55: 9000000 INFO @ Wed, 22 Apr 2020 10:45:57: 3000000 INFO @ Wed, 22 Apr 2020 10:45:59: 17000000 INFO @ Wed, 22 Apr 2020 10:46:00: 10000000 INFO @ Wed, 22 Apr 2020 10:46:02: 4000000 INFO @ Wed, 22 Apr 2020 10:46:04: 18000000 INFO @ Wed, 22 Apr 2020 10:46:05: 11000000 INFO @ Wed, 22 Apr 2020 10:46:07: 5000000 INFO @ Wed, 22 Apr 2020 10:46:09: 19000000 INFO @ Wed, 22 Apr 2020 10:46:10: 12000000 INFO @ Wed, 22 Apr 2020 10:46:12: 6000000 INFO @ Wed, 22 Apr 2020 10:46:14: 20000000 INFO @ Wed, 22 Apr 2020 10:46:14: 13000000 INFO @ Wed, 22 Apr 2020 10:46:16: 7000000 INFO @ Wed, 22 Apr 2020 10:46:18: 21000000 INFO @ Wed, 22 Apr 2020 10:46:19: 14000000 INFO @ Wed, 22 Apr 2020 10:46:21: 8000000 INFO @ Wed, 22 Apr 2020 10:46:23: 22000000 INFO @ Wed, 22 Apr 2020 10:46:24: 15000000 INFO @ Wed, 22 Apr 2020 10:46:26: 9000000 INFO @ Wed, 22 Apr 2020 10:46:28: 23000000 INFO @ Wed, 22 Apr 2020 10:46:29: 16000000 INFO @ Wed, 22 Apr 2020 10:46:31: 10000000 INFO @ Wed, 22 Apr 2020 10:46:33: 24000000 INFO @ Wed, 22 Apr 2020 10:46:34: 17000000 INFO @ Wed, 22 Apr 2020 10:46:36: 11000000 INFO @ Wed, 22 Apr 2020 10:46:38: 25000000 INFO @ Wed, 22 Apr 2020 10:46:39: 18000000 INFO @ Wed, 22 Apr 2020 10:46:41: 12000000 INFO @ Wed, 22 Apr 2020 10:46:42: 26000000 INFO @ Wed, 22 Apr 2020 10:46:44: 19000000 INFO @ Wed, 22 Apr 2020 10:46:46: 13000000 INFO @ Wed, 22 Apr 2020 10:46:47: 27000000 INFO @ Wed, 22 Apr 2020 10:46:48: 20000000 INFO @ Wed, 22 Apr 2020 10:46:51: 14000000 INFO @ Wed, 22 Apr 2020 10:46:52: 28000000 INFO @ Wed, 22 Apr 2020 10:46:53: 21000000 INFO @ Wed, 22 Apr 2020 10:46:56: 15000000 INFO @ Wed, 22 Apr 2020 10:46:57: 29000000 INFO @ Wed, 22 Apr 2020 10:46:58: 22000000 INFO @ Wed, 22 Apr 2020 10:47:01: 16000000 INFO @ Wed, 22 Apr 2020 10:47:02: 30000000 INFO @ Wed, 22 Apr 2020 10:47:03: 23000000 INFO @ Wed, 22 Apr 2020 10:47:06: 17000000 INFO @ Wed, 22 Apr 2020 10:47:06: 31000000 INFO @ Wed, 22 Apr 2020 10:47:08: 24000000 INFO @ Wed, 22 Apr 2020 10:47:11: 18000000 INFO @ Wed, 22 Apr 2020 10:47:11: 32000000 INFO @ Wed, 22 Apr 2020 10:47:13: 25000000 INFO @ Wed, 22 Apr 2020 10:47:16: 19000000 INFO @ Wed, 22 Apr 2020 10:47:16: 33000000 INFO @ Wed, 22 Apr 2020 10:47:18: 26000000 INFO @ Wed, 22 Apr 2020 10:47:20: 20000000 INFO @ Wed, 22 Apr 2020 10:47:21: 34000000 INFO @ Wed, 22 Apr 2020 10:47:23: 27000000 INFO @ Wed, 22 Apr 2020 10:47:25: 21000000 INFO @ Wed, 22 Apr 2020 10:47:26: 35000000 INFO @ Wed, 22 Apr 2020 10:47:27: 28000000 INFO @ Wed, 22 Apr 2020 10:47:30: 22000000 INFO @ Wed, 22 Apr 2020 10:47:30: 36000000 INFO @ Wed, 22 Apr 2020 10:47:32: 29000000 INFO @ Wed, 22 Apr 2020 10:47:35: 23000000 INFO @ Wed, 22 Apr 2020 10:47:35: 37000000 INFO @ Wed, 22 Apr 2020 10:47:37: 30000000 INFO @ Wed, 22 Apr 2020 10:47:39: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:47:39: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:47:39: #1 total tags in treatment: 18786734 INFO @ Wed, 22 Apr 2020 10:47:39: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:47:39: #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 10:47:39: #1 tags after filtering in treatment: 11018056 INFO @ Wed, 22 Apr 2020 10:47:39: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:47:39: #1 finished! INFO @ Wed, 22 Apr 2020 10:47:39: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:47:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:47:39: 24000000 INFO @ Wed, 22 Apr 2020 10:47:40: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:47:40: 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 10:47:40: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 10:47:42: 31000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:47:44: 25000000 INFO @ Wed, 22 Apr 2020 10:47:46: 32000000 INFO @ Wed, 22 Apr 2020 10:47:49: 26000000 INFO @ Wed, 22 Apr 2020 10:47:51: 33000000 INFO @ Wed, 22 Apr 2020 10:47:54: 27000000 INFO @ Wed, 22 Apr 2020 10:47:56: 34000000 INFO @ Wed, 22 Apr 2020 10:47:58: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:48:01: 35000000 INFO @ Wed, 22 Apr 2020 10:48:03: 29000000 INFO @ Wed, 22 Apr 2020 10:48:06: 36000000 INFO @ Wed, 22 Apr 2020 10:48:08: 30000000 INFO @ Wed, 22 Apr 2020 10:48:11: 37000000 INFO @ Wed, 22 Apr 2020 10:48:13: 31000000 INFO @ Wed, 22 Apr 2020 10:48:15: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:48:15: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:48:15: #1 total tags in treatment: 18786734 INFO @ Wed, 22 Apr 2020 10:48:15: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:48:15: #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 10:48:15: #1 tags after filtering in treatment: 11018056 INFO @ Wed, 22 Apr 2020 10:48:15: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:48:15: #1 finished! INFO @ Wed, 22 Apr 2020 10:48:15: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:48:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:48:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:48:16: 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 10:48:16: Process for pairing-model is terminated! BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:48:18: 32000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 8 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:48:22: 33000000 INFO @ Wed, 22 Apr 2020 10:48:27: 34000000 INFO @ Wed, 22 Apr 2020 10:48:31: 35000000 INFO @ Wed, 22 Apr 2020 10:48:36: 36000000 INFO @ Wed, 22 Apr 2020 10:48:40: 37000000 INFO @ Wed, 22 Apr 2020 10:48:44: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:48:44: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:48:44: #1 total tags in treatment: 18786734 INFO @ Wed, 22 Apr 2020 10:48:44: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:48:44: #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 10:48:44: #1 tags after filtering in treatment: 11018056 INFO @ Wed, 22 Apr 2020 10:48:44: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:48:44: #1 finished! INFO @ Wed, 22 Apr 2020 10:48:44: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:48:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:48:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:48:45: 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 10:48:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.20_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/SRX7409620/SRX7409620.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409620/SRX7409620.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling