Job ID = 2008255 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,170,624 reads read : 20,341,248 reads written : 20,341,248 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628978.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: 00:11:35 10170624 reads; of these: 10170624 (100.00%) were paired; of these: 1694849 (16.66%) aligned concordantly 0 times 7529704 (74.03%) aligned concordantly exactly 1 time 946071 (9.30%) aligned concordantly >1 times ---- 1694849 pairs aligned concordantly 0 times; of these: 335008 (19.77%) aligned discordantly 1 time ---- 1359841 pairs aligned 0 times concordantly or discordantly; of these: 2719682 mates make up the pairs; of these: 2377532 (87.42%) aligned 0 times 234910 (8.64%) aligned exactly 1 time 107240 (3.94%) aligned >1 times 88.31% overall alignment rate Time searching: 00:11:35 Overall time: 00:11:35 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] 1524462 / 8763398 = 0.1740 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 18:32:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.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 18:32:21: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:32:21: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:32:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.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 18:32:22: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:32:22: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:32:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.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 18:32:23: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:32:23: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:32:32: 1000000 INFO @ Fri, 05 Jul 2019 18:32:32: 1000000 INFO @ Fri, 05 Jul 2019 18:32:34: 1000000 INFO @ Fri, 05 Jul 2019 18:32:40: 2000000 INFO @ Fri, 05 Jul 2019 18:32:43: 2000000 INFO @ Fri, 05 Jul 2019 18:32:47: 2000000 INFO @ Fri, 05 Jul 2019 18:32:49: 3000000 INFO @ Fri, 05 Jul 2019 18:32:53: 3000000 INFO @ Fri, 05 Jul 2019 18:32:57: 4000000 INFO @ Fri, 05 Jul 2019 18:33:00: 3000000 INFO @ Fri, 05 Jul 2019 18:33:04: 4000000 INFO @ Fri, 05 Jul 2019 18:33:06: 5000000 INFO @ Fri, 05 Jul 2019 18:33:11: 4000000 INFO @ Fri, 05 Jul 2019 18:33:14: 6000000 INFO @ Fri, 05 Jul 2019 18:33:15: 5000000 INFO @ Fri, 05 Jul 2019 18:33:22: 5000000 INFO @ Fri, 05 Jul 2019 18:33:23: 7000000 INFO @ Fri, 05 Jul 2019 18:33:25: 6000000 INFO @ Fri, 05 Jul 2019 18:33:31: 8000000 INFO @ Fri, 05 Jul 2019 18:33:32: 6000000 INFO @ Fri, 05 Jul 2019 18:33:36: 7000000 INFO @ Fri, 05 Jul 2019 18:33:39: 9000000 INFO @ Fri, 05 Jul 2019 18:33:43: 7000000 INFO @ Fri, 05 Jul 2019 18:33:46: 8000000 INFO @ Fri, 05 Jul 2019 18:33:48: 10000000 INFO @ Fri, 05 Jul 2019 18:33:53: 8000000 INFO @ Fri, 05 Jul 2019 18:33:56: 11000000 INFO @ Fri, 05 Jul 2019 18:33:57: 9000000 INFO @ Fri, 05 Jul 2019 18:34:04: 9000000 INFO @ Fri, 05 Jul 2019 18:34:04: 12000000 INFO @ Fri, 05 Jul 2019 18:34:08: 10000000 INFO @ Fri, 05 Jul 2019 18:34:12: 13000000 INFO @ Fri, 05 Jul 2019 18:34:13: 10000000 INFO @ Fri, 05 Jul 2019 18:34:18: 11000000 INFO @ Fri, 05 Jul 2019 18:34:21: 14000000 INFO @ Fri, 05 Jul 2019 18:34:24: 11000000 INFO @ Fri, 05 Jul 2019 18:34:29: 12000000 INFO @ Fri, 05 Jul 2019 18:34:30: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:34:30: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:34:30: #1 total tags in treatment: 6968392 INFO @ Fri, 05 Jul 2019 18:34:30: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:34:30: #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 18:34:30: #1 tags after filtering in treatment: 4049954 INFO @ Fri, 05 Jul 2019 18:34:30: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:34:30: #1 finished! INFO @ Fri, 05 Jul 2019 18:34:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:34:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:34:30: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:34:30: 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 @ Fri, 05 Jul 2019 18:34:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.20_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/ERX585778/ERX585778.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:34:36: 12000000 INFO @ Fri, 05 Jul 2019 18:34:39: 13000000 INFO @ Fri, 05 Jul 2019 18:34:46: 13000000 INFO @ Fri, 05 Jul 2019 18:34:50: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 18:34:57: 14000000 INFO @ Fri, 05 Jul 2019 18:34:59: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:34:59: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:34:59: #1 total tags in treatment: 6968392 INFO @ Fri, 05 Jul 2019 18:34:59: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:34:59: #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 18:35:00: #1 tags after filtering in treatment: 4049954 INFO @ Fri, 05 Jul 2019 18:35:00: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:35:00: #1 finished! INFO @ Fri, 05 Jul 2019 18:35:00: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:35:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:35:00: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:35:00: 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 @ Fri, 05 Jul 2019 18:35:00: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:35:06: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:35:06: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:35:06: #1 total tags in treatment: 6968392 INFO @ Fri, 05 Jul 2019 18:35:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:35:06: #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 18:35:06: #1 tags after filtering in treatment: 4049954 INFO @ Fri, 05 Jul 2019 18:35:06: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:35:06: #1 finished! INFO @ Fri, 05 Jul 2019 18:35:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:35:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:35:07: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:35:07: 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 18:35:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.10_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/ERX585778/ERX585778.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585778/ERX585778.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。