Job ID = 2008293 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 4,620,710 reads read : 9,241,420 reads written : 9,241,420 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629024.sra.cache’: 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: 00:07:52 4620710 reads; of these: 4620710 (100.00%) were paired; of these: 720036 (15.58%) aligned concordantly 0 times 3614282 (78.22%) aligned concordantly exactly 1 time 286392 (6.20%) aligned concordantly >1 times ---- 720036 pairs aligned concordantly 0 times; of these: 147759 (20.52%) aligned discordantly 1 time ---- 572277 pairs aligned 0 times concordantly or discordantly; of these: 1144554 mates make up the pairs; of these: 1003226 (87.65%) aligned 0 times 111140 (9.71%) aligned exactly 1 time 30188 (2.64%) aligned >1 times 89.14% overall alignment rate Time searching: 00:07:52 Overall time: 00:07:52 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_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] 424498 / 4031707 = 0.1053 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Fri, 05 Jul 2019 18:35:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.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 @ Fri, 05 Jul 2019 18:35:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:35:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:36:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.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 @ Fri, 05 Jul 2019 18:36:00: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:36:00: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:36:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.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 @ Fri, 05 Jul 2019 18:36:02: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:36:02: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:36:14: 1000000 INFO @ Fri, 05 Jul 2019 18:36:20: 1000000 INFO @ Fri, 05 Jul 2019 18:36:28: 1000000 INFO @ Fri, 05 Jul 2019 18:36:30: 2000000 INFO @ Fri, 05 Jul 2019 18:36:46: 3000000 INFO @ Fri, 05 Jul 2019 18:36:48: 2000000 INFO @ Fri, 05 Jul 2019 18:36:52: 2000000 INFO @ Fri, 05 Jul 2019 18:36:58: 4000000 INFO @ Fri, 05 Jul 2019 18:37:12: 3000000 INFO @ Fri, 05 Jul 2019 18:37:12: 3000000 INFO @ Fri, 05 Jul 2019 18:37:15: 5000000 INFO @ Fri, 05 Jul 2019 18:37:28: 6000000 INFO @ Fri, 05 Jul 2019 18:37:28: 4000000 INFO @ Fri, 05 Jul 2019 18:37:28: 4000000 INFO @ Fri, 05 Jul 2019 18:37:40: 7000000 INFO @ Fri, 05 Jul 2019 18:37:44: 5000000 INFO @ Fri, 05 Jul 2019 18:37:44: 5000000 INFO @ Fri, 05 Jul 2019 18:37:46: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:37:46: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:37:46: #1 total tags in treatment: 3480646 INFO @ Fri, 05 Jul 2019 18:37:46: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:37:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:37:46: #1 tags after filtering in treatment: 2376450 INFO @ Fri, 05 Jul 2019 18:37:46: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 18:37:46: #1 finished! INFO @ Fri, 05 Jul 2019 18:37:46: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:37:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:37:46: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:37:46: 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 @ Fri, 05 Jul 2019 18:37:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.05_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/ERX585805/ERX585805.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 18:37:59: 6000000 INFO @ Fri, 05 Jul 2019 18:38:00: 6000000 INFO @ Fri, 05 Jul 2019 18:38:14: 7000000 INFO @ Fri, 05 Jul 2019 18:38:15: 7000000 INFO @ Fri, 05 Jul 2019 18:38:19: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:38:19: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:38:19: #1 total tags in treatment: 3480646 INFO @ Fri, 05 Jul 2019 18:38:19: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:38:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:38:19: #1 tags after filtering in treatment: 2376450 INFO @ Fri, 05 Jul 2019 18:38:19: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 18:38:19: #1 finished! INFO @ Fri, 05 Jul 2019 18:38:19: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:38:19: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:38:20: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:38:20: 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 @ Fri, 05 Jul 2019 18:38:20: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:38:21: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:38:21: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:38:21: #1 total tags in treatment: 3480646 INFO @ Fri, 05 Jul 2019 18:38:21: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:38:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:38:21: #1 tags after filtering in treatment: 2376450 INFO @ Fri, 05 Jul 2019 18:38:21: #1 Redundant rate of treatment: 0.32 INFO @ Fri, 05 Jul 2019 18:38:21: #1 finished! INFO @ Fri, 05 Jul 2019 18:38:21: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:38:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:38:21: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:38:21: 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 @ Fri, 05 Jul 2019 18:38:21: Process for pairing-model is terminated! BigWig に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 201 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 222 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585805/ERX585805.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling