Job ID = 2640752 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 8,588,407 reads read : 17,176,814 reads written : 17,176,814 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: 00:05:28 8588407 reads; of these: 8588407 (100.00%) were paired; of these: 432737 (5.04%) aligned concordantly 0 times 6868690 (79.98%) aligned concordantly exactly 1 time 1286980 (14.99%) aligned concordantly >1 times ---- 432737 pairs aligned concordantly 0 times; of these: 114177 (26.38%) aligned discordantly 1 time ---- 318560 pairs aligned 0 times concordantly or discordantly; of these: 637120 mates make up the pairs; of these: 492549 (77.31%) aligned 0 times 81682 (12.82%) aligned exactly 1 time 62889 (9.87%) aligned >1 times 97.13% overall alignment rate Time searching: 00:05:28 Overall time: 00:05:28 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 8 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] 477193 / 8166223 = 0.0584 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:07:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.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 @ Sat, 24 Aug 2019 19:07:35: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:07:35: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:07:42: 1000000 INFO @ Sat, 24 Aug 2019 19:07:48: 2000000 INFO @ Sat, 24 Aug 2019 19:07:55: 3000000 INFO @ Sat, 24 Aug 2019 19:08:01: 4000000 INFO @ Sat, 24 Aug 2019 19:08:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.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 @ Sat, 24 Aug 2019 19:08:04: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:08:04: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:08:08: 5000000 INFO @ Sat, 24 Aug 2019 19:08:11: 1000000 INFO @ Sat, 24 Aug 2019 19:08:15: 6000000 INFO @ Sat, 24 Aug 2019 19:08:18: 2000000 INFO @ Sat, 24 Aug 2019 19:08:21: 7000000 INFO @ Sat, 24 Aug 2019 19:08:25: 3000000 INFO @ Sat, 24 Aug 2019 19:08:28: 8000000 INFO @ Sat, 24 Aug 2019 19:08:31: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:08:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.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 @ Sat, 24 Aug 2019 19:08:34: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:08:34: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:08:34: 9000000 INFO @ Sat, 24 Aug 2019 19:08:38: 5000000 INFO @ Sat, 24 Aug 2019 19:08:41: 1000000 INFO @ Sat, 24 Aug 2019 19:08:41: 10000000 INFO @ Sat, 24 Aug 2019 19:08:45: 6000000 INFO @ Sat, 24 Aug 2019 19:08:48: 2000000 INFO @ Sat, 24 Aug 2019 19:08:48: 11000000 INFO @ Sat, 24 Aug 2019 19:08:52: 7000000 INFO @ Sat, 24 Aug 2019 19:08:55: 3000000 INFO @ Sat, 24 Aug 2019 19:08:56: 12000000 INFO @ Sat, 24 Aug 2019 19:08:58: 8000000 INFO @ Sat, 24 Aug 2019 19:09:01: 4000000 INFO @ Sat, 24 Aug 2019 19:09:02: 13000000 INFO @ Sat, 24 Aug 2019 19:09:05: 9000000 INFO @ Sat, 24 Aug 2019 19:09:08: 5000000 INFO @ Sat, 24 Aug 2019 19:09:09: 14000000 INFO @ Sat, 24 Aug 2019 19:09:12: 10000000 INFO @ Sat, 24 Aug 2019 19:09:15: 6000000 INFO @ Sat, 24 Aug 2019 19:09:16: 15000000 INFO @ Sat, 24 Aug 2019 19:09:19: 11000000 INFO @ Sat, 24 Aug 2019 19:09:21: #1 tag size is determined as 33 bps INFO @ Sat, 24 Aug 2019 19:09:21: #1 tag size = 33 INFO @ Sat, 24 Aug 2019 19:09:21: #1 total tags in treatment: 7678926 INFO @ Sat, 24 Aug 2019 19:09:21: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:09:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:09:21: #1 tags after filtering in treatment: 5854772 INFO @ Sat, 24 Aug 2019 19:09:21: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 24 Aug 2019 19:09:21: #1 finished! INFO @ Sat, 24 Aug 2019 19:09:21: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:09:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:09:21: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:09:21: 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 @ Sat, 24 Aug 2019 19:09:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.05_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/ERX2732443/ERX2732443.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:09:22: 7000000 INFO @ Sat, 24 Aug 2019 19:09:26: 12000000 INFO @ Sat, 24 Aug 2019 19:09:28: 8000000 INFO @ Sat, 24 Aug 2019 19:09:32: 13000000 INFO @ Sat, 24 Aug 2019 19:09:35: 9000000 INFO @ Sat, 24 Aug 2019 19:09:39: 14000000 INFO @ Sat, 24 Aug 2019 19:09:41: 10000000 INFO @ Sat, 24 Aug 2019 19:09:46: 15000000 INFO @ Sat, 24 Aug 2019 19:09:48: 11000000 INFO @ Sat, 24 Aug 2019 19:09:50: #1 tag size is determined as 33 bps INFO @ Sat, 24 Aug 2019 19:09:50: #1 tag size = 33 INFO @ Sat, 24 Aug 2019 19:09:50: #1 total tags in treatment: 7678926 INFO @ Sat, 24 Aug 2019 19:09:50: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:09:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:09:51: #1 tags after filtering in treatment: 5854772 INFO @ Sat, 24 Aug 2019 19:09:51: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 24 Aug 2019 19:09:51: #1 finished! INFO @ Sat, 24 Aug 2019 19:09:51: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:09:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:09:51: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:09:51: 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 @ Sat, 24 Aug 2019 19:09:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.10_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/ERX2732443/ERX2732443.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:09:55: 12000000 INFO @ Sat, 24 Aug 2019 19:10:01: 13000000 INFO @ Sat, 24 Aug 2019 19:10:08: 14000000 INFO @ Sat, 24 Aug 2019 19:10:14: 15000000 INFO @ Sat, 24 Aug 2019 19:10:19: #1 tag size is determined as 33 bps INFO @ Sat, 24 Aug 2019 19:10:19: #1 tag size = 33 INFO @ Sat, 24 Aug 2019 19:10:19: #1 total tags in treatment: 7678926 INFO @ Sat, 24 Aug 2019 19:10:19: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:10:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:10:19: #1 tags after filtering in treatment: 5854772 INFO @ Sat, 24 Aug 2019 19:10:19: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 24 Aug 2019 19:10:19: #1 finished! INFO @ Sat, 24 Aug 2019 19:10:19: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:10:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:10:19: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:10:19: 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 @ Sat, 24 Aug 2019 19:10:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.20_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/ERX2732443/ERX2732443.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2732443/ERX2732443.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。