Job ID = 5791114 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 18,336,326 reads read : 36,672,652 reads written : 36,672,652 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: 00:08:55 18336326 reads; of these: 18336326 (100.00%) were paired; of these: 3842153 (20.95%) aligned concordantly 0 times 12759645 (69.59%) aligned concordantly exactly 1 time 1734528 (9.46%) aligned concordantly >1 times ---- 3842153 pairs aligned concordantly 0 times; of these: 616270 (16.04%) aligned discordantly 1 time ---- 3225883 pairs aligned 0 times concordantly or discordantly; of these: 6451766 mates make up the pairs; of these: 5568214 (86.31%) aligned 0 times 485583 (7.53%) aligned exactly 1 time 397969 (6.17%) aligned >1 times 84.82% overall alignment rate Time searching: 00:08:55 Overall time: 00:08:55 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 16 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] 697899 / 15086050 = 0.0463 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 09:04:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.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 09:04:22: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:04:22: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:04:27: 1000000 INFO @ Wed, 22 Apr 2020 09:04:33: 2000000 INFO @ Wed, 22 Apr 2020 09:04:38: 3000000 INFO @ Wed, 22 Apr 2020 09:04:44: 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 09:04:49: 5000000 INFO @ Wed, 22 Apr 2020 09:04:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.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 09:04:50: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:04:50: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:04:54: 6000000 INFO @ Wed, 22 Apr 2020 09:04:56: 1000000 INFO @ Wed, 22 Apr 2020 09:05:00: 7000000 INFO @ Wed, 22 Apr 2020 09:05:01: 2000000 INFO @ Wed, 22 Apr 2020 09:05:05: 8000000 INFO @ Wed, 22 Apr 2020 09:05:06: 3000000 INFO @ Wed, 22 Apr 2020 09:05:10: 9000000 INFO @ Wed, 22 Apr 2020 09:05:12: 4000000 BedGraph に変換中... INFO @ Wed, 22 Apr 2020 09:05:16: 10000000 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 09:05:17: 5000000 INFO @ Wed, 22 Apr 2020 09:05:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.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 09:05:20: #1 read tag files... INFO @ Wed, 22 Apr 2020 09:05:20: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 09:05:22: 11000000 INFO @ Wed, 22 Apr 2020 09:05:23: 6000000 INFO @ Wed, 22 Apr 2020 09:05:25: 1000000 INFO @ Wed, 22 Apr 2020 09:05:27: 12000000 INFO @ Wed, 22 Apr 2020 09:05:28: 7000000 INFO @ Wed, 22 Apr 2020 09:05:31: 2000000 INFO @ Wed, 22 Apr 2020 09:05:33: 13000000 INFO @ Wed, 22 Apr 2020 09:05:34: 8000000 INFO @ Wed, 22 Apr 2020 09:05:37: 3000000 INFO @ Wed, 22 Apr 2020 09:05:38: 14000000 INFO @ Wed, 22 Apr 2020 09:05:39: 9000000 INFO @ Wed, 22 Apr 2020 09:05:43: 4000000 INFO @ Wed, 22 Apr 2020 09:05:44: 15000000 INFO @ Wed, 22 Apr 2020 09:05:45: 10000000 INFO @ Wed, 22 Apr 2020 09:05:48: 5000000 INFO @ Wed, 22 Apr 2020 09:05:49: 16000000 INFO @ Wed, 22 Apr 2020 09:05:50: 11000000 INFO @ Wed, 22 Apr 2020 09:05:54: 6000000 INFO @ Wed, 22 Apr 2020 09:05:55: 17000000 INFO @ Wed, 22 Apr 2020 09:05:56: 12000000 INFO @ Wed, 22 Apr 2020 09:06:00: 7000000 INFO @ Wed, 22 Apr 2020 09:06:00: 18000000 INFO @ Wed, 22 Apr 2020 09:06:01: 13000000 INFO @ Wed, 22 Apr 2020 09:06:05: 8000000 INFO @ Wed, 22 Apr 2020 09:06:06: 19000000 INFO @ Wed, 22 Apr 2020 09:06:07: 14000000 INFO @ Wed, 22 Apr 2020 09:06:11: 9000000 INFO @ Wed, 22 Apr 2020 09:06:11: 20000000 INFO @ Wed, 22 Apr 2020 09:06:12: 15000000 INFO @ Wed, 22 Apr 2020 09:06:16: 10000000 INFO @ Wed, 22 Apr 2020 09:06:17: 21000000 INFO @ Wed, 22 Apr 2020 09:06:18: 16000000 INFO @ Wed, 22 Apr 2020 09:06:22: 11000000 INFO @ Wed, 22 Apr 2020 09:06:22: 22000000 INFO @ Wed, 22 Apr 2020 09:06:23: 17000000 INFO @ Wed, 22 Apr 2020 09:06:28: 12000000 INFO @ Wed, 22 Apr 2020 09:06:28: 23000000 INFO @ Wed, 22 Apr 2020 09:06:29: 18000000 INFO @ Wed, 22 Apr 2020 09:06:33: 13000000 INFO @ Wed, 22 Apr 2020 09:06:33: 24000000 INFO @ Wed, 22 Apr 2020 09:06:34: 19000000 INFO @ Wed, 22 Apr 2020 09:06:39: 25000000 INFO @ Wed, 22 Apr 2020 09:06:39: 14000000 INFO @ Wed, 22 Apr 2020 09:06:39: 20000000 INFO @ Wed, 22 Apr 2020 09:06:44: 26000000 INFO @ Wed, 22 Apr 2020 09:06:45: 15000000 INFO @ Wed, 22 Apr 2020 09:06:45: 21000000 INFO @ Wed, 22 Apr 2020 09:06:49: 27000000 INFO @ Wed, 22 Apr 2020 09:06:50: 16000000 INFO @ Wed, 22 Apr 2020 09:06:50: 22000000 INFO @ Wed, 22 Apr 2020 09:06:55: 28000000 INFO @ Wed, 22 Apr 2020 09:06:55: 17000000 INFO @ Wed, 22 Apr 2020 09:06:55: 23000000 INFO @ Wed, 22 Apr 2020 09:07:00: 29000000 INFO @ Wed, 22 Apr 2020 09:07:00: 18000000 INFO @ Wed, 22 Apr 2020 09:07:01: 24000000 INFO @ Wed, 22 Apr 2020 09:07:03: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 09:07:03: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 09:07:03: #1 total tags in treatment: 13805751 INFO @ Wed, 22 Apr 2020 09:07:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:07:03: #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 09:07:03: #1 tags after filtering in treatment: 9549705 INFO @ Wed, 22 Apr 2020 09:07:03: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Apr 2020 09:07:03: #1 finished! INFO @ Wed, 22 Apr 2020 09:07:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:07:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:07:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:07:04: 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 09:07:04: Process for pairing-model is terminated! INFO @ Wed, 22 Apr 2020 09:07:04: 19000000 INFO @ Wed, 22 Apr 2020 09:07:06: 25000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.05_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/SRX6078425/SRX6078425.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:07:09: 20000000 INFO @ Wed, 22 Apr 2020 09:07:11: 26000000 INFO @ Wed, 22 Apr 2020 09:07:14: 21000000 INFO @ Wed, 22 Apr 2020 09:07:16: 27000000 INFO @ Wed, 22 Apr 2020 09:07:19: 22000000 INFO @ Wed, 22 Apr 2020 09:07:21: 28000000 INFO @ Wed, 22 Apr 2020 09:07:24: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 09:07:26: 29000000 INFO @ Wed, 22 Apr 2020 09:07:29: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 09:07:29: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 09:07:29: #1 total tags in treatment: 13805751 INFO @ Wed, 22 Apr 2020 09:07:29: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:07:29: #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 09:07:30: 24000000 INFO @ Wed, 22 Apr 2020 09:07:30: #1 tags after filtering in treatment: 9549705 INFO @ Wed, 22 Apr 2020 09:07:30: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Apr 2020 09:07:30: #1 finished! INFO @ Wed, 22 Apr 2020 09:07:30: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:07:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:07:30: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:07:30: 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 09:07:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.10_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/SRX6078425/SRX6078425.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 09:07:35: 25000000 INFO @ Wed, 22 Apr 2020 09:07:40: 26000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 09:07:44: 27000000 INFO @ Wed, 22 Apr 2020 09:07:49: 28000000 INFO @ Wed, 22 Apr 2020 09:07:54: 29000000 INFO @ Wed, 22 Apr 2020 09:07:58: #1 tag size is determined as 51 bps INFO @ Wed, 22 Apr 2020 09:07:58: #1 tag size = 51 INFO @ Wed, 22 Apr 2020 09:07:58: #1 total tags in treatment: 13805751 INFO @ Wed, 22 Apr 2020 09:07:58: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 09:07:58: #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 09:07:58: #1 tags after filtering in treatment: 9549705 INFO @ Wed, 22 Apr 2020 09:07:58: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Apr 2020 09:07:58: #1 finished! INFO @ Wed, 22 Apr 2020 09:07:58: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 09:07:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 09:07:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 09:07:59: 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 09:07:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.20_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/SRX6078425/SRX6078425.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6078425/SRX6078425.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling