Job ID = 2008357 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,745,649 reads read : 19,491,298 reads written : 19,491,298 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR629088.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: 00:11:56 9745649 reads; of these: 9745649 (100.00%) were paired; of these: 556617 (5.71%) aligned concordantly 0 times 8690297 (89.17%) aligned concordantly exactly 1 time 498735 (5.12%) aligned concordantly >1 times ---- 556617 pairs aligned concordantly 0 times; of these: 186783 (33.56%) aligned discordantly 1 time ---- 369834 pairs aligned 0 times concordantly or discordantly; of these: 739668 mates make up the pairs; of these: 662123 (89.52%) aligned 0 times 52616 (7.11%) aligned exactly 1 time 24929 (3.37%) aligned >1 times 96.60% overall alignment rate Time searching: 00:11:56 Overall time: 00:11:56 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] 1851088 / 9338758 = 0.1982 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 19:10:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.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 19:10:09: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:10:09: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:10:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.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 19:10:10: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:10:10: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:10:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.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 19:10:17: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:10:17: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:10:21: 1000000 INFO @ Fri, 05 Jul 2019 19:10:22: 1000000 INFO @ Fri, 05 Jul 2019 19:10:28: 1000000 INFO @ Fri, 05 Jul 2019 19:10:33: 2000000 INFO @ Fri, 05 Jul 2019 19:10:35: 2000000 INFO @ Fri, 05 Jul 2019 19:10:38: 2000000 INFO @ Fri, 05 Jul 2019 19:10:47: 3000000 INFO @ Fri, 05 Jul 2019 19:10:48: 3000000 INFO @ Fri, 05 Jul 2019 19:10:48: 3000000 INFO @ Fri, 05 Jul 2019 19:10:58: 4000000 INFO @ Fri, 05 Jul 2019 19:11:00: 4000000 INFO @ Fri, 05 Jul 2019 19:11:00: 4000000 INFO @ Fri, 05 Jul 2019 19:11:08: 5000000 INFO @ Fri, 05 Jul 2019 19:11:13: 5000000 INFO @ Fri, 05 Jul 2019 19:11:14: 5000000 INFO @ Fri, 05 Jul 2019 19:11:17: 6000000 INFO @ Fri, 05 Jul 2019 19:11:25: 6000000 INFO @ Fri, 05 Jul 2019 19:11:26: 6000000 INFO @ Fri, 05 Jul 2019 19:11:26: 7000000 INFO @ Fri, 05 Jul 2019 19:11:36: 8000000 INFO @ Fri, 05 Jul 2019 19:11:36: 7000000 INFO @ Fri, 05 Jul 2019 19:11:39: 7000000 INFO @ Fri, 05 Jul 2019 19:11:45: 9000000 INFO @ Fri, 05 Jul 2019 19:11:47: 8000000 INFO @ Fri, 05 Jul 2019 19:11:52: 8000000 INFO @ Fri, 05 Jul 2019 19:11:55: 10000000 INFO @ Fri, 05 Jul 2019 19:11:59: 9000000 INFO @ Fri, 05 Jul 2019 19:12:04: 9000000 INFO @ Fri, 05 Jul 2019 19:12:04: 11000000 INFO @ Fri, 05 Jul 2019 19:12:10: 10000000 INFO @ Fri, 05 Jul 2019 19:12:14: 12000000 INFO @ Fri, 05 Jul 2019 19:12:16: 10000000 INFO @ Fri, 05 Jul 2019 19:12:23: 11000000 INFO @ Fri, 05 Jul 2019 19:12:24: 13000000 INFO @ Fri, 05 Jul 2019 19:12:28: 11000000 INFO @ Fri, 05 Jul 2019 19:12:33: 14000000 INFO @ Fri, 05 Jul 2019 19:12:35: 12000000 INFO @ Fri, 05 Jul 2019 19:12:39: 12000000 INFO @ Fri, 05 Jul 2019 19:12:43: 15000000 INFO @ Fri, 05 Jul 2019 19:12:44: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:12:44: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:12:44: #1 total tags in treatment: 7345444 INFO @ Fri, 05 Jul 2019 19:12:44: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:12:44: #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 19:12:44: #1 tags after filtering in treatment: 3851811 INFO @ Fri, 05 Jul 2019 19:12:44: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 19:12:44: #1 finished! INFO @ Fri, 05 Jul 2019 19:12:44: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:12:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:12:45: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:12:45: 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 19:12:45: Process for pairing-model is terminated! BedGraph に変換しました。 INFO @ Fri, 05 Jul 2019 19:12:49: 13000000 INFO @ Fri, 05 Jul 2019 19:12:52: 13000000 INFO @ Fri, 05 Jul 2019 19:13:01: 14000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.20_peaks.narrowPeak: No such file or directory BigWig に変換中... INFO @ Fri, 05 Jul 2019 19:13:03: 14000000 pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:13:14: 15000000 INFO @ Fri, 05 Jul 2019 19:13:14: 15000000 INFO @ Fri, 05 Jul 2019 19:13:15: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:13:15: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:13:15: #1 total tags in treatment: 7345444 INFO @ Fri, 05 Jul 2019 19:13:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:13:15: #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 19:13:16: #1 tags after filtering in treatment: 3851811 INFO @ Fri, 05 Jul 2019 19:13:16: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 19:13:16: #1 finished! INFO @ Fri, 05 Jul 2019 19:13:16: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:13:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:13:16: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:13:16: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:13:16: #1 total tags in treatment: 7345444 INFO @ Fri, 05 Jul 2019 19:13:16: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:13:16: #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 19:13:16: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:13:16: 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 19:13:16: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 19:13:16: #1 tags after filtering in treatment: 3851811 INFO @ Fri, 05 Jul 2019 19:13:16: #1 Redundant rate of treatment: 0.48 INFO @ Fri, 05 Jul 2019 19:13:16: #1 finished! INFO @ Fri, 05 Jul 2019 19:13:16: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:13:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:13:16: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:13:16: 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 19:13:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.05_*.xls’: No such file or directoryrm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585858/ERX585858.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling BigWig に変換しました。