Job ID = 5791661 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 36,559,307 reads read : 73,118,614 reads written : 73,118,614 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: 00:30:33 36559307 reads; of these: 36559307 (100.00%) were paired; of these: 2822398 (7.72%) aligned concordantly 0 times 26068014 (71.30%) aligned concordantly exactly 1 time 7668895 (20.98%) aligned concordantly >1 times ---- 2822398 pairs aligned concordantly 0 times; of these: 17478 (0.62%) aligned discordantly 1 time ---- 2804920 pairs aligned 0 times concordantly or discordantly; of these: 5609840 mates make up the pairs; of these: 5087940 (90.70%) aligned 0 times 357770 (6.38%) aligned exactly 1 time 164130 (2.93%) aligned >1 times 93.04% overall alignment rate Time searching: 00:30:33 Overall time: 00:30:33 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] 19470583 / 33747225 = 0.5770 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 11:20:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.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 11:20:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:20:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:20:18: 1000000 INFO @ Wed, 22 Apr 2020 11:20:24: 2000000 INFO @ Wed, 22 Apr 2020 11:20:31: 3000000 INFO @ Wed, 22 Apr 2020 11:20:38: 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 11:20:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.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 11:20:41: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:20:41: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:20:45: 5000000 INFO @ Wed, 22 Apr 2020 11:20:48: 1000000 INFO @ Wed, 22 Apr 2020 11:20:53: 6000000 INFO @ Wed, 22 Apr 2020 11:20:55: 2000000 INFO @ Wed, 22 Apr 2020 11:21:01: 7000000 INFO @ Wed, 22 Apr 2020 11:21:02: 3000000 INFO @ Wed, 22 Apr 2020 11:21:09: 8000000 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 11:21:09: 4000000 INFO @ Wed, 22 Apr 2020 11:21:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.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 11:21:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:21:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:21:17: 5000000 INFO @ Wed, 22 Apr 2020 11:21:17: 9000000 INFO @ Wed, 22 Apr 2020 11:21:18: 1000000 INFO @ Wed, 22 Apr 2020 11:21:25: 6000000 INFO @ Wed, 22 Apr 2020 11:21:25: 10000000 INFO @ Wed, 22 Apr 2020 11:21:25: 2000000 INFO @ Wed, 22 Apr 2020 11:21:32: 7000000 INFO @ Wed, 22 Apr 2020 11:21:33: 3000000 INFO @ Wed, 22 Apr 2020 11:21:33: 11000000 INFO @ Wed, 22 Apr 2020 11:21:40: 4000000 INFO @ Wed, 22 Apr 2020 11:21:40: 8000000 INFO @ Wed, 22 Apr 2020 11:21:42: 12000000 INFO @ Wed, 22 Apr 2020 11:21:48: 5000000 INFO @ Wed, 22 Apr 2020 11:21:48: 9000000 INFO @ Wed, 22 Apr 2020 11:21:50: 13000000 INFO @ Wed, 22 Apr 2020 11:21:55: 6000000 INFO @ Wed, 22 Apr 2020 11:21:55: 10000000 INFO @ Wed, 22 Apr 2020 11:21:58: 14000000 INFO @ Wed, 22 Apr 2020 11:22:03: 7000000 INFO @ Wed, 22 Apr 2020 11:22:03: 11000000 INFO @ Wed, 22 Apr 2020 11:22:06: 15000000 INFO @ Wed, 22 Apr 2020 11:22:11: 8000000 INFO @ Wed, 22 Apr 2020 11:22:11: 12000000 INFO @ Wed, 22 Apr 2020 11:22:14: 16000000 INFO @ Wed, 22 Apr 2020 11:22:18: 9000000 INFO @ Wed, 22 Apr 2020 11:22:18: 13000000 INFO @ Wed, 22 Apr 2020 11:22:22: 17000000 INFO @ Wed, 22 Apr 2020 11:22:26: 10000000 INFO @ Wed, 22 Apr 2020 11:22:26: 14000000 INFO @ Wed, 22 Apr 2020 11:22:30: 18000000 INFO @ Wed, 22 Apr 2020 11:22:34: 15000000 INFO @ Wed, 22 Apr 2020 11:22:34: 11000000 INFO @ Wed, 22 Apr 2020 11:22:38: 19000000 INFO @ Wed, 22 Apr 2020 11:22:41: 16000000 INFO @ Wed, 22 Apr 2020 11:22:41: 12000000 INFO @ Wed, 22 Apr 2020 11:22:46: 20000000 INFO @ Wed, 22 Apr 2020 11:22:49: 17000000 INFO @ Wed, 22 Apr 2020 11:22:49: 13000000 INFO @ Wed, 22 Apr 2020 11:22:54: 21000000 INFO @ Wed, 22 Apr 2020 11:22:57: 18000000 INFO @ Wed, 22 Apr 2020 11:22:57: 14000000 INFO @ Wed, 22 Apr 2020 11:23:02: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 11:23:04: 19000000 INFO @ Wed, 22 Apr 2020 11:23:04: 15000000 INFO @ Wed, 22 Apr 2020 11:23:10: 23000000 INFO @ Wed, 22 Apr 2020 11:23:12: 20000000 INFO @ Wed, 22 Apr 2020 11:23:12: 16000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 11:23:18: 24000000 INFO @ Wed, 22 Apr 2020 11:23:20: 21000000 INFO @ Wed, 22 Apr 2020 11:23:20: 17000000 INFO @ Wed, 22 Apr 2020 11:23:26: 25000000 INFO @ Wed, 22 Apr 2020 11:23:27: 22000000 INFO @ Wed, 22 Apr 2020 11:23:27: 18000000 INFO @ Wed, 22 Apr 2020 11:23:34: 26000000 INFO @ Wed, 22 Apr 2020 11:23:35: 23000000 INFO @ Wed, 22 Apr 2020 11:23:35: 19000000 INFO @ Wed, 22 Apr 2020 11:23:42: 27000000 INFO @ Wed, 22 Apr 2020 11:23:43: 24000000 INFO @ Wed, 22 Apr 2020 11:23:43: 20000000 INFO @ Wed, 22 Apr 2020 11:23:50: 25000000 INFO @ Wed, 22 Apr 2020 11:23:50: 21000000 INFO @ Wed, 22 Apr 2020 11:23:50: 28000000 INFO @ Wed, 22 Apr 2020 11:23:58: 26000000 INFO @ Wed, 22 Apr 2020 11:23:58: 22000000 INFO @ Wed, 22 Apr 2020 11:23:58: 29000000 INFO @ Wed, 22 Apr 2020 11:23:59: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:23:59: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:23:59: #1 total tags in treatment: 14271106 INFO @ Wed, 22 Apr 2020 11:23:59: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:23:59: #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 11:23:59: #1 tags after filtering in treatment: 6199250 INFO @ Wed, 22 Apr 2020 11:23:59: #1 Redundant rate of treatment: 0.57 INFO @ Wed, 22 Apr 2020 11:23:59: #1 finished! INFO @ Wed, 22 Apr 2020 11:23:59: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:23:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:24:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:24:00: 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 11:24:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.05_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/SRX7409624/SRX7409624.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:24:05: 27000000 INFO @ Wed, 22 Apr 2020 11:24:06: 23000000 INFO @ Wed, 22 Apr 2020 11:24:13: 28000000 INFO @ Wed, 22 Apr 2020 11:24:13: 24000000 INFO @ Wed, 22 Apr 2020 11:24:20: 29000000 INFO @ Wed, 22 Apr 2020 11:24:21: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:24:21: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:24:21: #1 total tags in treatment: 14271106 INFO @ Wed, 22 Apr 2020 11:24:21: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:24:21: #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 11:24:21: 25000000 INFO @ Wed, 22 Apr 2020 11:24:21: #1 tags after filtering in treatment: 6199250 INFO @ Wed, 22 Apr 2020 11:24:21: #1 Redundant rate of treatment: 0.57 INFO @ Wed, 22 Apr 2020 11:24:21: #1 finished! INFO @ Wed, 22 Apr 2020 11:24:21: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:24:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:24:21: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:24:21: 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 11:24:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.10_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/SRX7409624/SRX7409624.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:24:27: 26000000 INFO @ Wed, 22 Apr 2020 11:24:34: 27000000 INFO @ Wed, 22 Apr 2020 11:24:41: 28000000 INFO @ Wed, 22 Apr 2020 11:24:47: 29000000 INFO @ Wed, 22 Apr 2020 11:24:48: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:24:48: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:24:48: #1 total tags in treatment: 14271106 INFO @ Wed, 22 Apr 2020 11:24:48: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:24:48: #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 11:24:48: #1 tags after filtering in treatment: 6199250 INFO @ Wed, 22 Apr 2020 11:24:48: #1 Redundant rate of treatment: 0.57 INFO @ Wed, 22 Apr 2020 11:24:48: #1 finished! INFO @ Wed, 22 Apr 2020 11:24:48: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:24:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:24:49: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:24:49: 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 11:24:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.20_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/SRX7409624/SRX7409624.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409624/SRX7409624.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling