Job ID = 2008238 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 10,948,552 reads read : 21,897,104 reads written : 21,897,104 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629052.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: 00:12:28 10948552 reads; of these: 10948552 (100.00%) were paired; of these: 1858299 (16.97%) aligned concordantly 0 times 8034465 (73.38%) aligned concordantly exactly 1 time 1055788 (9.64%) aligned concordantly >1 times ---- 1858299 pairs aligned concordantly 0 times; of these: 462440 (24.89%) aligned discordantly 1 time ---- 1395859 pairs aligned 0 times concordantly or discordantly; of these: 2791718 mates make up the pairs; of these: 2414641 (86.49%) aligned 0 times 239376 (8.57%) aligned exactly 1 time 137701 (4.93%) aligned >1 times 88.97% overall alignment rate Time searching: 00:12:28 Overall time: 00:12:28 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] 1577630 / 9495530 = 0.1661 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 18:33:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.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 18:33:22: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:33:22: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:33:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.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 18:33:22: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:33:22: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:33:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.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 18:33:23: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:33:23: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:33:32: 1000000 INFO @ Fri, 05 Jul 2019 18:33:33: 1000000 INFO @ Fri, 05 Jul 2019 18:33:37: 1000000 INFO @ Fri, 05 Jul 2019 18:33:43: 2000000 INFO @ Fri, 05 Jul 2019 18:33:44: 2000000 INFO @ Fri, 05 Jul 2019 18:33:50: 2000000 INFO @ Fri, 05 Jul 2019 18:33:53: 3000000 INFO @ Fri, 05 Jul 2019 18:33:54: 3000000 INFO @ Fri, 05 Jul 2019 18:34:04: 4000000 INFO @ Fri, 05 Jul 2019 18:34:04: 3000000 INFO @ Fri, 05 Jul 2019 18:34:05: 4000000 INFO @ Fri, 05 Jul 2019 18:34:15: 5000000 INFO @ Fri, 05 Jul 2019 18:34:16: 5000000 INFO @ Fri, 05 Jul 2019 18:34:17: 4000000 INFO @ Fri, 05 Jul 2019 18:34:25: 6000000 INFO @ Fri, 05 Jul 2019 18:34:26: 6000000 INFO @ Fri, 05 Jul 2019 18:34:31: 5000000 INFO @ Fri, 05 Jul 2019 18:34:36: 7000000 INFO @ Fri, 05 Jul 2019 18:34:37: 7000000 INFO @ Fri, 05 Jul 2019 18:34:44: 6000000 INFO @ Fri, 05 Jul 2019 18:34:47: 8000000 INFO @ Fri, 05 Jul 2019 18:34:48: 8000000 INFO @ Fri, 05 Jul 2019 18:34:56: 7000000 INFO @ Fri, 05 Jul 2019 18:34:57: 9000000 INFO @ Fri, 05 Jul 2019 18:34:58: 9000000 INFO @ Fri, 05 Jul 2019 18:35:08: 10000000 INFO @ Fri, 05 Jul 2019 18:35:09: 10000000 INFO @ Fri, 05 Jul 2019 18:35:09: 8000000 INFO @ Fri, 05 Jul 2019 18:35:19: 11000000 INFO @ Fri, 05 Jul 2019 18:35:20: 11000000 INFO @ Fri, 05 Jul 2019 18:35:22: 9000000 INFO @ Fri, 05 Jul 2019 18:35:29: 12000000 INFO @ Fri, 05 Jul 2019 18:35:30: 12000000 INFO @ Fri, 05 Jul 2019 18:35:34: 10000000 INFO @ Fri, 05 Jul 2019 18:35:40: 13000000 INFO @ Fri, 05 Jul 2019 18:35:41: 13000000 INFO @ Fri, 05 Jul 2019 18:35:47: 11000000 INFO @ Fri, 05 Jul 2019 18:35:50: 14000000 INFO @ Fri, 05 Jul 2019 18:35:51: 14000000 INFO @ Fri, 05 Jul 2019 18:36:00: 12000000 INFO @ Fri, 05 Jul 2019 18:36:01: 15000000 INFO @ Fri, 05 Jul 2019 18:36:02: 15000000 INFO @ Fri, 05 Jul 2019 18:36:11: 16000000 INFO @ Fri, 05 Jul 2019 18:36:12: 13000000 INFO @ Fri, 05 Jul 2019 18:36:12: 16000000 INFO @ Fri, 05 Jul 2019 18:36:15: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:36:15: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:36:15: #1 total tags in treatment: 7534241 INFO @ Fri, 05 Jul 2019 18:36:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:36:15: #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 18:36:15: #1 tags after filtering in treatment: 4262043 INFO @ Fri, 05 Jul 2019 18:36:15: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:36:15: #1 finished! INFO @ Fri, 05 Jul 2019 18:36:15: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:36:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:36:15: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:36:15: 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 18:36:15: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:36:16: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:36:16: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:36:16: #1 total tags in treatment: 7534241 INFO @ Fri, 05 Jul 2019 18:36:16: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:36:16: #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 18:36:16: #1 tags after filtering in treatment: 4262043 INFO @ Fri, 05 Jul 2019 18:36:16: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:36:16: #1 finished! INFO @ Fri, 05 Jul 2019 18:36:16: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:36:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:36:16: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:36:16: 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 18:36:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.10_peaks.narrowPeak’: No such file or directoryrm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.05_*.xls’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:36:24: 14000000 INFO @ Fri, 05 Jul 2019 18:36:36: 15000000 INFO @ Fri, 05 Jul 2019 18:36:48: 16000000 INFO @ Fri, 05 Jul 2019 18:36:52: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:36:52: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:36:52: #1 total tags in treatment: 7534241 INFO @ Fri, 05 Jul 2019 18:36:52: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:36:52: #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 18:36:52: #1 tags after filtering in treatment: 4262043 INFO @ Fri, 05 Jul 2019 18:36:52: #1 Redundant rate of treatment: 0.43 INFO @ Fri, 05 Jul 2019 18:36:52: #1 finished! INFO @ Fri, 05 Jul 2019 18:36:52: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:36:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:36:52: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:36:52: 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 18:36:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.20_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/ERX585762/ERX585762.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585762/ERX585762.20_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。