Job ID = 5791636 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 20,180,267 reads read : 40,360,534 reads written : 40,360,534 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: 00:10:01 20180267 reads; of these: 20180267 (100.00%) were paired; of these: 451597 (2.24%) aligned concordantly 0 times 17938013 (88.89%) aligned concordantly exactly 1 time 1790657 (8.87%) aligned concordantly >1 times ---- 451597 pairs aligned concordantly 0 times; of these: 16329 (3.62%) aligned discordantly 1 time ---- 435268 pairs aligned 0 times concordantly or discordantly; of these: 870536 mates make up the pairs; of these: 734281 (84.35%) aligned 0 times 115106 (13.22%) aligned exactly 1 time 21149 (2.43%) aligned >1 times 98.18% overall alignment rate Time searching: 00:10:01 Overall time: 00:10:01 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] 2657770 / 19733634 = 0.1347 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 10:28:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.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 10:28:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:28:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:28:23: 1000000 INFO @ Wed, 22 Apr 2020 10:28:27: 2000000 INFO @ Wed, 22 Apr 2020 10:28:31: 3000000 INFO @ Wed, 22 Apr 2020 10:28:35: 4000000 INFO @ Wed, 22 Apr 2020 10:28:39: 5000000 INFO @ Wed, 22 Apr 2020 10:28:43: 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 10:28:47: 7000000 INFO @ Wed, 22 Apr 2020 10:28:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.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 10:28:48: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:28:48: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:28:51: 8000000 INFO @ Wed, 22 Apr 2020 10:28:53: 1000000 INFO @ Wed, 22 Apr 2020 10:28:56: 9000000 INFO @ Wed, 22 Apr 2020 10:28:57: 2000000 INFO @ Wed, 22 Apr 2020 10:29:00: 10000000 INFO @ Wed, 22 Apr 2020 10:29:02: 3000000 INFO @ Wed, 22 Apr 2020 10:29:04: 11000000 INFO @ Wed, 22 Apr 2020 10:29:06: 4000000 INFO @ Wed, 22 Apr 2020 10:29:09: 12000000 INFO @ Wed, 22 Apr 2020 10:29:10: 5000000 INFO @ Wed, 22 Apr 2020 10:29:13: 13000000 INFO @ Wed, 22 Apr 2020 10:29:14: 6000000 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 10:29:17: 14000000 INFO @ Wed, 22 Apr 2020 10:29:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.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 10:29:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:29:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:29:19: 7000000 INFO @ Wed, 22 Apr 2020 10:29:22: 15000000 INFO @ Wed, 22 Apr 2020 10:29:23: 8000000 INFO @ Wed, 22 Apr 2020 10:29:24: 1000000 INFO @ Wed, 22 Apr 2020 10:29:26: 16000000 INFO @ Wed, 22 Apr 2020 10:29:27: 9000000 INFO @ Wed, 22 Apr 2020 10:29:29: 2000000 INFO @ Wed, 22 Apr 2020 10:29:30: 17000000 INFO @ Wed, 22 Apr 2020 10:29:32: 10000000 INFO @ Wed, 22 Apr 2020 10:29:34: 3000000 INFO @ Wed, 22 Apr 2020 10:29:35: 18000000 INFO @ Wed, 22 Apr 2020 10:29:36: 11000000 INFO @ Wed, 22 Apr 2020 10:29:39: 4000000 INFO @ Wed, 22 Apr 2020 10:29:39: 19000000 INFO @ Wed, 22 Apr 2020 10:29:41: 12000000 INFO @ Wed, 22 Apr 2020 10:29:43: 20000000 INFO @ Wed, 22 Apr 2020 10:29:44: 5000000 INFO @ Wed, 22 Apr 2020 10:29:45: 13000000 INFO @ Wed, 22 Apr 2020 10:29:48: 21000000 INFO @ Wed, 22 Apr 2020 10:29:49: 6000000 INFO @ Wed, 22 Apr 2020 10:29:49: 14000000 INFO @ Wed, 22 Apr 2020 10:29:52: 22000000 INFO @ Wed, 22 Apr 2020 10:29:54: 15000000 INFO @ Wed, 22 Apr 2020 10:29:54: 7000000 INFO @ Wed, 22 Apr 2020 10:29:56: 23000000 INFO @ Wed, 22 Apr 2020 10:29:58: 16000000 INFO @ Wed, 22 Apr 2020 10:29:59: 8000000 INFO @ Wed, 22 Apr 2020 10:30:01: 24000000 INFO @ Wed, 22 Apr 2020 10:30:02: 17000000 INFO @ Wed, 22 Apr 2020 10:30:04: 9000000 INFO @ Wed, 22 Apr 2020 10:30:05: 25000000 INFO @ Wed, 22 Apr 2020 10:30:07: 18000000 INFO @ Wed, 22 Apr 2020 10:30:09: 10000000 INFO @ Wed, 22 Apr 2020 10:30:09: 26000000 INFO @ Wed, 22 Apr 2020 10:30:11: 19000000 INFO @ Wed, 22 Apr 2020 10:30:14: 27000000 INFO @ Wed, 22 Apr 2020 10:30:14: 11000000 INFO @ Wed, 22 Apr 2020 10:30:15: 20000000 INFO @ Wed, 22 Apr 2020 10:30:18: 28000000 INFO @ Wed, 22 Apr 2020 10:30:19: 12000000 INFO @ Wed, 22 Apr 2020 10:30:20: 21000000 INFO @ Wed, 22 Apr 2020 10:30:22: 29000000 INFO @ Wed, 22 Apr 2020 10:30:24: 13000000 INFO @ Wed, 22 Apr 2020 10:30:24: 22000000 INFO @ Wed, 22 Apr 2020 10:30:26: 30000000 INFO @ Wed, 22 Apr 2020 10:30:28: 23000000 INFO @ Wed, 22 Apr 2020 10:30:29: 14000000 INFO @ Wed, 22 Apr 2020 10:30:31: 31000000 INFO @ Wed, 22 Apr 2020 10:30:33: 24000000 INFO @ Wed, 22 Apr 2020 10:30:34: 15000000 INFO @ Wed, 22 Apr 2020 10:30:35: 32000000 INFO @ Wed, 22 Apr 2020 10:30:37: 25000000 INFO @ Wed, 22 Apr 2020 10:30:39: 16000000 INFO @ Wed, 22 Apr 2020 10:30:39: 33000000 INFO @ Wed, 22 Apr 2020 10:30:41: 26000000 INFO @ Wed, 22 Apr 2020 10:30:44: 34000000 INFO @ Wed, 22 Apr 2020 10:30:44: 17000000 INFO @ Wed, 22 Apr 2020 10:30:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:30:45: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:30:45: #1 total tags in treatment: 17071545 INFO @ Wed, 22 Apr 2020 10:30:45: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:30:45: #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 10:30:45: #1 tags after filtering in treatment: 10056219 INFO @ Wed, 22 Apr 2020 10:30:45: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:30:45: #1 finished! INFO @ Wed, 22 Apr 2020 10:30:45: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:30:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:30:45: 27000000 INFO @ Wed, 22 Apr 2020 10:30:46: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:30:46: 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 10:30:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.05_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/SRX7409603/SRX7409603.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:30:49: 18000000 INFO @ Wed, 22 Apr 2020 10:30:50: 28000000 INFO @ Wed, 22 Apr 2020 10:30:54: 19000000 INFO @ Wed, 22 Apr 2020 10:30:54: 29000000 INFO @ Wed, 22 Apr 2020 10:30:58: 30000000 INFO @ Wed, 22 Apr 2020 10:30:59: 20000000 INFO @ Wed, 22 Apr 2020 10:31:03: 31000000 INFO @ Wed, 22 Apr 2020 10:31:04: 21000000 INFO @ Wed, 22 Apr 2020 10:31:07: 32000000 INFO @ Wed, 22 Apr 2020 10:31:09: 22000000 INFO @ Wed, 22 Apr 2020 10:31:11: 33000000 INFO @ Wed, 22 Apr 2020 10:31:14: 23000000 INFO @ Wed, 22 Apr 2020 10:31:15: 34000000 INFO @ Wed, 22 Apr 2020 10:31:17: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:31:17: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:31:17: #1 total tags in treatment: 17071545 INFO @ Wed, 22 Apr 2020 10:31:17: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:31:17: #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 10:31:17: #1 tags after filtering in treatment: 10056219 INFO @ Wed, 22 Apr 2020 10:31:17: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:31:17: #1 finished! INFO @ Wed, 22 Apr 2020 10:31:17: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:31:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:31:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:31:18: 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 10:31:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.10_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/SRX7409603/SRX7409603.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:31:18: 24000000 INFO @ Wed, 22 Apr 2020 10:31:23: 25000000 INFO @ Wed, 22 Apr 2020 10:31:28: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:31:33: 27000000 INFO @ Wed, 22 Apr 2020 10:31:38: 28000000 INFO @ Wed, 22 Apr 2020 10:31:43: 29000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:31:47: 30000000 INFO @ Wed, 22 Apr 2020 10:31:52: 31000000 INFO @ Wed, 22 Apr 2020 10:31:57: 32000000 INFO @ Wed, 22 Apr 2020 10:32:02: 33000000 INFO @ Wed, 22 Apr 2020 10:32:07: 34000000 INFO @ Wed, 22 Apr 2020 10:32:08: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:32:08: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:32:08: #1 total tags in treatment: 17071545 INFO @ Wed, 22 Apr 2020 10:32:08: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:32:08: #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 10:32:08: #1 tags after filtering in treatment: 10056219 INFO @ Wed, 22 Apr 2020 10:32:08: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 22 Apr 2020 10:32:08: #1 finished! INFO @ Wed, 22 Apr 2020 10:32:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:32:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:32:09: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:32:09: 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 10:32:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.20_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/SRX7409603/SRX7409603.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409603/SRX7409603.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling