Job ID = 2010715 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,826,204 reads read : 15,652,408 reads written : 15,652,408 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: 00:06:59 7826204 reads; of these: 7826204 (100.00%) were paired; of these: 1531149 (19.56%) aligned concordantly 0 times 5487661 (70.12%) aligned concordantly exactly 1 time 807394 (10.32%) aligned concordantly >1 times ---- 1531149 pairs aligned concordantly 0 times; of these: 78266 (5.11%) aligned discordantly 1 time ---- 1452883 pairs aligned 0 times concordantly or discordantly; of these: 2905766 mates make up the pairs; of these: 2573778 (88.57%) aligned 0 times 250201 (8.61%) aligned exactly 1 time 81787 (2.81%) aligned >1 times 83.56% overall alignment rate Time searching: 00:06:59 Overall time: 00:06:59 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] 81066 / 6356156 = 0.0128 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 @ Sat, 06 Jul 2019 00:25:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.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, 06 Jul 2019 00:25:38: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:25:38: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:25:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.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, 06 Jul 2019 00:25:38: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:25:38: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:25:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.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, 06 Jul 2019 00:25:39: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:25:39: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:25:46: 1000000 INFO @ Sat, 06 Jul 2019 00:25:47: 1000000 INFO @ Sat, 06 Jul 2019 00:25:48: 1000000 INFO @ Sat, 06 Jul 2019 00:25:55: 2000000 INFO @ Sat, 06 Jul 2019 00:25:55: 2000000 INFO @ Sat, 06 Jul 2019 00:25:56: 2000000 INFO @ Sat, 06 Jul 2019 00:26:03: 3000000 INFO @ Sat, 06 Jul 2019 00:26:04: 3000000 INFO @ Sat, 06 Jul 2019 00:26:05: 3000000 INFO @ Sat, 06 Jul 2019 00:26:12: 4000000 INFO @ Sat, 06 Jul 2019 00:26:13: 4000000 INFO @ Sat, 06 Jul 2019 00:26:13: 4000000 INFO @ Sat, 06 Jul 2019 00:26:20: 5000000 INFO @ Sat, 06 Jul 2019 00:26:21: 5000000 INFO @ Sat, 06 Jul 2019 00:26:22: 5000000 INFO @ Sat, 06 Jul 2019 00:26:29: 6000000 INFO @ Sat, 06 Jul 2019 00:26:30: 6000000 INFO @ Sat, 06 Jul 2019 00:26:30: 6000000 INFO @ Sat, 06 Jul 2019 00:26:38: 7000000 INFO @ Sat, 06 Jul 2019 00:26:39: 7000000 INFO @ Sat, 06 Jul 2019 00:26:39: 7000000 INFO @ Sat, 06 Jul 2019 00:26:46: 8000000 INFO @ Sat, 06 Jul 2019 00:26:48: 8000000 INFO @ Sat, 06 Jul 2019 00:26:48: 8000000 INFO @ Sat, 06 Jul 2019 00:26:55: 9000000 INFO @ Sat, 06 Jul 2019 00:26:56: 9000000 INFO @ Sat, 06 Jul 2019 00:26:56: 9000000 INFO @ Sat, 06 Jul 2019 00:27:03: 10000000 INFO @ Sat, 06 Jul 2019 00:27:05: 10000000 INFO @ Sat, 06 Jul 2019 00:27:05: 10000000 INFO @ Sat, 06 Jul 2019 00:27:12: 11000000 INFO @ Sat, 06 Jul 2019 00:27:14: 11000000 INFO @ Sat, 06 Jul 2019 00:27:14: 11000000 INFO @ Sat, 06 Jul 2019 00:27:20: 12000000 INFO @ Sat, 06 Jul 2019 00:27:22: 12000000 INFO @ Sat, 06 Jul 2019 00:27:23: 12000000 INFO @ Sat, 06 Jul 2019 00:27:28: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:27:28: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:27:28: #1 total tags in treatment: 6214360 INFO @ Sat, 06 Jul 2019 00:27:28: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:27:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 00:27:28: #1 tags after filtering in treatment: 5030449 INFO @ Sat, 06 Jul 2019 00:27:28: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 06 Jul 2019 00:27:28: #1 finished! INFO @ Sat, 06 Jul 2019 00:27:28: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:27:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:27:28: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:27:28: 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, 06 Jul 2019 00:27:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.05_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/SRX386898/SRX386898.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:27:30: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:27:30: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:27:30: #1 total tags in treatment: 6214360 INFO @ Sat, 06 Jul 2019 00:27:30: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:27:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 00:27:31: #1 tag size is determined as 75 bps INFO @ Sat, 06 Jul 2019 00:27:31: #1 tag size = 75 INFO @ Sat, 06 Jul 2019 00:27:31: #1 total tags in treatment: 6214360 INFO @ Sat, 06 Jul 2019 00:27:31: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:27:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 00:27:31: #1 tags after filtering in treatment: 5030449 INFO @ Sat, 06 Jul 2019 00:27:31: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 06 Jul 2019 00:27:31: #1 finished! INFO @ Sat, 06 Jul 2019 00:27:31: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:27:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:27:31: #1 tags after filtering in treatment: 5030449 INFO @ Sat, 06 Jul 2019 00:27:31: #1 Redundant rate of treatment: 0.19 INFO @ Sat, 06 Jul 2019 00:27:31: #1 finished! INFO @ Sat, 06 Jul 2019 00:27:31: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:27:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:27:31: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:27:31: 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, 06 Jul 2019 00:27:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.20_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/SRX386898/SRX386898.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:27:31: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 00:27:31: 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, 06 Jul 2019 00:27:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.10_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/SRX386898/SRX386898.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX386898/SRX386898.10_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。