Job ID = 2010926 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 13,704,393 reads read : 27,408,786 reads written : 27,408,786 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1106080.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: 00:16:41 13704393 reads; of these: 13704393 (100.00%) were paired; of these: 2271191 (16.57%) aligned concordantly 0 times 9317324 (67.99%) aligned concordantly exactly 1 time 2115878 (15.44%) aligned concordantly >1 times ---- 2271191 pairs aligned concordantly 0 times; of these: 306945 (13.51%) aligned discordantly 1 time ---- 1964246 pairs aligned 0 times concordantly or discordantly; of these: 3928492 mates make up the pairs; of these: 3507604 (89.29%) aligned 0 times 189756 (4.83%) aligned exactly 1 time 231132 (5.88%) aligned >1 times 87.20% overall alignment rate Time searching: 00:16:41 Overall time: 00:16:41 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 12 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] 985968 / 11695327 = 0.0843 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 01:48:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.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 01:48:34: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:48:34: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:48:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.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 01:48:35: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:48:35: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:48:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.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 01:48:38: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:48:38: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:48:42: 1000000 INFO @ Sat, 06 Jul 2019 01:48:44: 1000000 INFO @ Sat, 06 Jul 2019 01:48:48: 1000000 INFO @ Sat, 06 Jul 2019 01:48:51: 2000000 INFO @ Sat, 06 Jul 2019 01:48:54: 2000000 INFO @ Sat, 06 Jul 2019 01:48:58: 2000000 INFO @ Sat, 06 Jul 2019 01:48:59: 3000000 INFO @ Sat, 06 Jul 2019 01:49:03: 3000000 INFO @ Sat, 06 Jul 2019 01:49:08: 4000000 INFO @ Sat, 06 Jul 2019 01:49:08: 3000000 INFO @ Sat, 06 Jul 2019 01:49:12: 4000000 INFO @ Sat, 06 Jul 2019 01:49:16: 5000000 INFO @ Sat, 06 Jul 2019 01:49:18: 4000000 INFO @ Sat, 06 Jul 2019 01:49:21: 5000000 INFO @ Sat, 06 Jul 2019 01:49:24: 6000000 INFO @ Sat, 06 Jul 2019 01:49:28: 5000000 INFO @ Sat, 06 Jul 2019 01:49:30: 6000000 INFO @ Sat, 06 Jul 2019 01:49:32: 7000000 INFO @ Sat, 06 Jul 2019 01:49:38: 6000000 INFO @ Sat, 06 Jul 2019 01:49:39: 7000000 INFO @ Sat, 06 Jul 2019 01:49:41: 8000000 INFO @ Sat, 06 Jul 2019 01:49:47: 7000000 INFO @ Sat, 06 Jul 2019 01:49:48: 8000000 INFO @ Sat, 06 Jul 2019 01:49:49: 9000000 INFO @ Sat, 06 Jul 2019 01:49:57: 9000000 INFO @ Sat, 06 Jul 2019 01:49:57: 8000000 INFO @ Sat, 06 Jul 2019 01:49:57: 10000000 INFO @ Sat, 06 Jul 2019 01:50:06: 10000000 INFO @ Sat, 06 Jul 2019 01:50:06: 11000000 INFO @ Sat, 06 Jul 2019 01:50:07: 9000000 INFO @ Sat, 06 Jul 2019 01:50:14: 12000000 INFO @ Sat, 06 Jul 2019 01:50:14: 11000000 INFO @ Sat, 06 Jul 2019 01:50:17: 10000000 INFO @ Sat, 06 Jul 2019 01:50:22: 13000000 INFO @ Sat, 06 Jul 2019 01:50:23: 12000000 INFO @ Sat, 06 Jul 2019 01:50:27: 11000000 INFO @ Sat, 06 Jul 2019 01:50:30: 14000000 INFO @ Sat, 06 Jul 2019 01:50:32: 13000000 INFO @ Sat, 06 Jul 2019 01:50:37: 12000000 INFO @ Sat, 06 Jul 2019 01:50:38: 15000000 INFO @ Sat, 06 Jul 2019 01:50:41: 14000000 INFO @ Sat, 06 Jul 2019 01:50:46: 13000000 INFO @ Sat, 06 Jul 2019 01:50:46: 16000000 INFO @ Sat, 06 Jul 2019 01:50:49: 15000000 INFO @ Sat, 06 Jul 2019 01:50:55: 17000000 INFO @ Sat, 06 Jul 2019 01:50:56: 14000000 INFO @ Sat, 06 Jul 2019 01:50:58: 16000000 INFO @ Sat, 06 Jul 2019 01:51:03: 18000000 INFO @ Sat, 06 Jul 2019 01:51:05: 15000000 INFO @ Sat, 06 Jul 2019 01:51:06: 17000000 INFO @ Sat, 06 Jul 2019 01:51:11: 19000000 INFO @ Sat, 06 Jul 2019 01:51:15: 18000000 INFO @ Sat, 06 Jul 2019 01:51:15: 16000000 INFO @ Sat, 06 Jul 2019 01:51:19: 20000000 INFO @ Sat, 06 Jul 2019 01:51:23: 19000000 INFO @ Sat, 06 Jul 2019 01:51:25: 17000000 INFO @ Sat, 06 Jul 2019 01:51:28: 21000000 INFO @ Sat, 06 Jul 2019 01:51:31: 20000000 INFO @ Sat, 06 Jul 2019 01:51:35: 18000000 INFO @ Sat, 06 Jul 2019 01:51:36: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:51:36: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:51:36: #1 total tags in treatment: 10450415 INFO @ Sat, 06 Jul 2019 01:51:36: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:51:36: #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 01:51:36: #1 tags after filtering in treatment: 7408716 INFO @ Sat, 06 Jul 2019 01:51:36: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 06 Jul 2019 01:51:36: #1 finished! INFO @ Sat, 06 Jul 2019 01:51:36: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:51:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:51:36: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:51:36: 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 01:51:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.05_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/SRX424822/SRX424822.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:51:39: 21000000 INFO @ Sat, 06 Jul 2019 01:51:44: 19000000 INFO @ Sat, 06 Jul 2019 01:51:47: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:51:47: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:51:47: #1 total tags in treatment: 10450415 INFO @ Sat, 06 Jul 2019 01:51:47: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:51:47: #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 01:51:47: #1 tags after filtering in treatment: 7408716 INFO @ Sat, 06 Jul 2019 01:51:47: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 06 Jul 2019 01:51:47: #1 finished! INFO @ Sat, 06 Jul 2019 01:51:47: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:51:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:51:48: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:51:48: 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 01:51:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.10_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/SRX424822/SRX424822.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:51:54: 20000000 INFO @ Sat, 06 Jul 2019 01:52:03: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 01:52:12: #1 tag size is determined as 100 bps INFO @ Sat, 06 Jul 2019 01:52:12: #1 tag size = 100 INFO @ Sat, 06 Jul 2019 01:52:12: #1 total tags in treatment: 10450415 INFO @ Sat, 06 Jul 2019 01:52:12: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:52:12: #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 01:52:13: #1 tags after filtering in treatment: 7408716 INFO @ Sat, 06 Jul 2019 01:52:13: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 06 Jul 2019 01:52:13: #1 finished! INFO @ Sat, 06 Jul 2019 01:52:13: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:52:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:52:13: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 01:52:13: 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 01:52:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.20_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/SRX424822/SRX424822.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX424822/SRX424822.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。