Job ID = 2011676 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,314,455 reads read : 20,628,910 reads written : 20,628,910 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1146743.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: 00:07:20 10314455 reads; of these: 10314455 (100.00%) were paired; of these: 1795949 (17.41%) aligned concordantly 0 times 6877748 (66.68%) aligned concordantly exactly 1 time 1640758 (15.91%) aligned concordantly >1 times ---- 1795949 pairs aligned concordantly 0 times; of these: 263608 (14.68%) aligned discordantly 1 time ---- 1532341 pairs aligned 0 times concordantly or discordantly; of these: 3064682 mates make up the pairs; of these: 2711802 (88.49%) aligned 0 times 166394 (5.43%) aligned exactly 1 time 186486 (6.09%) aligned >1 times 86.85% overall alignment rate Time searching: 00:07:20 Overall time: 00:07:20 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] 1514221 / 8635507 = 0.1753 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 02:10:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.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 02:10:33: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:10:33: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:10:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.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 02:10:34: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:10:34: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:10:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.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 02:10:35: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:10:35: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:10:39: 1000000 INFO @ Sat, 06 Jul 2019 02:10:41: 1000000 INFO @ Sat, 06 Jul 2019 02:10:42: 1000000 INFO @ Sat, 06 Jul 2019 02:10:46: 2000000 INFO @ Sat, 06 Jul 2019 02:10:49: 2000000 INFO @ Sat, 06 Jul 2019 02:10:50: 2000000 INFO @ Sat, 06 Jul 2019 02:10:52: 3000000 INFO @ Sat, 06 Jul 2019 02:10:57: 3000000 INFO @ Sat, 06 Jul 2019 02:10:58: 3000000 INFO @ Sat, 06 Jul 2019 02:10:59: 4000000 INFO @ Sat, 06 Jul 2019 02:11:04: 4000000 INFO @ Sat, 06 Jul 2019 02:11:05: 5000000 INFO @ Sat, 06 Jul 2019 02:11:05: 4000000 INFO @ Sat, 06 Jul 2019 02:11:12: 6000000 INFO @ Sat, 06 Jul 2019 02:11:12: 5000000 INFO @ Sat, 06 Jul 2019 02:11:13: 5000000 INFO @ Sat, 06 Jul 2019 02:11:18: 7000000 INFO @ Sat, 06 Jul 2019 02:11:20: 6000000 INFO @ Sat, 06 Jul 2019 02:11:21: 6000000 INFO @ Sat, 06 Jul 2019 02:11:25: 8000000 INFO @ Sat, 06 Jul 2019 02:11:27: 7000000 INFO @ Sat, 06 Jul 2019 02:11:28: 7000000 INFO @ Sat, 06 Jul 2019 02:11:31: 9000000 INFO @ Sat, 06 Jul 2019 02:11:35: 8000000 INFO @ Sat, 06 Jul 2019 02:11:36: 8000000 INFO @ Sat, 06 Jul 2019 02:11:38: 10000000 INFO @ Sat, 06 Jul 2019 02:11:43: 9000000 INFO @ Sat, 06 Jul 2019 02:11:44: 9000000 INFO @ Sat, 06 Jul 2019 02:11:44: 11000000 INFO @ Sat, 06 Jul 2019 02:11:50: 10000000 INFO @ Sat, 06 Jul 2019 02:11:50: 12000000 INFO @ Sat, 06 Jul 2019 02:11:51: 10000000 INFO @ Sat, 06 Jul 2019 02:11:57: 13000000 INFO @ Sat, 06 Jul 2019 02:11:58: 11000000 INFO @ Sat, 06 Jul 2019 02:11:59: 11000000 INFO @ Sat, 06 Jul 2019 02:12:04: 14000000 INFO @ Sat, 06 Jul 2019 02:12:05: 12000000 INFO @ Sat, 06 Jul 2019 02:12:06: 12000000 INFO @ Sat, 06 Jul 2019 02:12:10: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:12:10: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:12:10: #1 total tags in treatment: 7026348 INFO @ Sat, 06 Jul 2019 02:12:10: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:12:10: #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 02:12:10: #1 tags after filtering in treatment: 5300033 INFO @ Sat, 06 Jul 2019 02:12:10: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 06 Jul 2019 02:12:10: #1 finished! INFO @ Sat, 06 Jul 2019 02:12:10: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:12:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:12:10: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:12:10: 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 02:12:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.05_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/SRX455453/SRX455453.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:12:13: 13000000 INFO @ Sat, 06 Jul 2019 02:12:14: 13000000 INFO @ Sat, 06 Jul 2019 02:12:21: 14000000 INFO @ Sat, 06 Jul 2019 02:12:22: 14000000 INFO @ Sat, 06 Jul 2019 02:12:27: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:12:27: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:12:27: #1 total tags in treatment: 7026348 INFO @ Sat, 06 Jul 2019 02:12:27: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:12:27: #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 02:12:28: #1 tags after filtering in treatment: 5300033 INFO @ Sat, 06 Jul 2019 02:12:28: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 06 Jul 2019 02:12:28: #1 finished! INFO @ Sat, 06 Jul 2019 02:12:28: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:12:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:12:28: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:12:28: 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 02:12:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.10_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/SRX455453/SRX455453.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:12:28: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:12:28: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:12:28: #1 total tags in treatment: 7026348 INFO @ Sat, 06 Jul 2019 02:12:28: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:12:28: #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 02:12:28: #1 tags after filtering in treatment: 5300033 INFO @ Sat, 06 Jul 2019 02:12:28: #1 Redundant rate of treatment: 0.25 INFO @ Sat, 06 Jul 2019 02:12:28: #1 finished! INFO @ Sat, 06 Jul 2019 02:12:28: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:12:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:12:29: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:12:29: 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 02:12:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.20_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/SRX455453/SRX455453.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX455453/SRX455453.20_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。