Job ID = 9302871 sra ファイルのダウンロード中... Completed: 351578K bytes transferred in 9 seconds (290531K bits/sec), in 1 file, 2 directories. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Written 6270988 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2745546/SRR5457483.sra Written 6270988 spots total rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:06:26 6270988 reads; of these: 6270988 (100.00%) were paired; of these: 948504 (15.13%) aligned concordantly 0 times 3622431 (57.76%) aligned concordantly exactly 1 time 1700053 (27.11%) aligned concordantly >1 times ---- 948504 pairs aligned concordantly 0 times; of these: 426433 (44.96%) aligned discordantly 1 time ---- 522071 pairs aligned 0 times concordantly or discordantly; of these: 1044142 mates make up the pairs; of these: 550295 (52.70%) aligned 0 times 71292 (6.83%) aligned exactly 1 time 422555 (40.47%) aligned >1 times 95.61% overall alignment rate Time searching: 00:06:26 Overall time: 00:06:26 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] 286367 / 5743528 = 0.0499 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, 28 Jul 2017 11:37:34: # Command line: callpeak -t SRX2745546.bam -f BAM -g 12100000 -n SRX2745546.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2745546.05 # format = BAM # ChIP-seq file = ['SRX2745546.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, 28 Jul 2017 11:37:34: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:37:34: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:37:34: # Command line: callpeak -t SRX2745546.bam -f BAM -g 12100000 -n SRX2745546.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2745546.20 # format = BAM # ChIP-seq file = ['SRX2745546.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, 28 Jul 2017 11:37:34: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:37:34: # Command line: callpeak -t SRX2745546.bam -f BAM -g 12100000 -n SRX2745546.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2745546.10 # format = BAM # ChIP-seq file = ['SRX2745546.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, 28 Jul 2017 11:37:34: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:37:34: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:37:34: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:37:40: 1000000 INFO @ Fri, 28 Jul 2017 11:37:40: 1000000 INFO @ Fri, 28 Jul 2017 11:37:40: 1000000 INFO @ Fri, 28 Jul 2017 11:37:46: 2000000 INFO @ Fri, 28 Jul 2017 11:37:46: 2000000 INFO @ Fri, 28 Jul 2017 11:37:47: 2000000 INFO @ Fri, 28 Jul 2017 11:37:53: 3000000 INFO @ Fri, 28 Jul 2017 11:37:53: 3000000 INFO @ Fri, 28 Jul 2017 11:37:53: 3000000 INFO @ Fri, 28 Jul 2017 11:37:59: 4000000 INFO @ Fri, 28 Jul 2017 11:37:59: 4000000 INFO @ Fri, 28 Jul 2017 11:38:00: 4000000 INFO @ Fri, 28 Jul 2017 11:38:05: 5000000 INFO @ Fri, 28 Jul 2017 11:38:05: 5000000 INFO @ Fri, 28 Jul 2017 11:38:07: 5000000 INFO @ Fri, 28 Jul 2017 11:38:11: 6000000 INFO @ Fri, 28 Jul 2017 11:38:11: 6000000 INFO @ Fri, 28 Jul 2017 11:38:13: 6000000 INFO @ Fri, 28 Jul 2017 11:38:18: 7000000 INFO @ Fri, 28 Jul 2017 11:38:18: 7000000 INFO @ Fri, 28 Jul 2017 11:38:20: 7000000 INFO @ Fri, 28 Jul 2017 11:38:24: 8000000 INFO @ Fri, 28 Jul 2017 11:38:24: 8000000 INFO @ Fri, 28 Jul 2017 11:38:27: 8000000 INFO @ Fri, 28 Jul 2017 11:38:30: 9000000 INFO @ Fri, 28 Jul 2017 11:38:30: 9000000 INFO @ Fri, 28 Jul 2017 11:38:33: 9000000 INFO @ Fri, 28 Jul 2017 11:38:36: 10000000 INFO @ Fri, 28 Jul 2017 11:38:36: 10000000 INFO @ Fri, 28 Jul 2017 11:38:40: 10000000 INFO @ Fri, 28 Jul 2017 11:38:43: 11000000 INFO @ Fri, 28 Jul 2017 11:38:43: 11000000 INFO @ Fri, 28 Jul 2017 11:38:45: #1 tag size is determined as 75 bps INFO @ Fri, 28 Jul 2017 11:38:45: #1 tag size = 75 INFO @ Fri, 28 Jul 2017 11:38:45: #1 total tags in treatment: 5039763 INFO @ Fri, 28 Jul 2017 11:38:45: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:38:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:38:45: #1 tag size is determined as 75 bps INFO @ Fri, 28 Jul 2017 11:38:45: #1 tag size = 75 INFO @ Fri, 28 Jul 2017 11:38:45: #1 total tags in treatment: 5039763 INFO @ Fri, 28 Jul 2017 11:38:45: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:38:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:38:45: #1 tags after filtering in treatment: 3507738 INFO @ Fri, 28 Jul 2017 11:38:45: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 28 Jul 2017 11:38:45: #1 finished! INFO @ Fri, 28 Jul 2017 11:38:45: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:38:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:38:45: #1 tags after filtering in treatment: 3507738 INFO @ Fri, 28 Jul 2017 11:38:45: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 28 Jul 2017 11:38:45: #1 finished! INFO @ Fri, 28 Jul 2017 11:38:45: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:38:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:38:45: #2 number of paired peaks: 29 WARNING @ Fri, 28 Jul 2017 11:38:45: Too few paired peaks (29) 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, 28 Jul 2017 11:38:45: Process for pairing-model is terminated! INFO @ Fri, 28 Jul 2017 11:38:45: #2 number of paired peaks: 29 WARNING @ Fri, 28 Jul 2017 11:38:45: Too few paired peaks (29) 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, 28 Jul 2017 11:38:45: Process for pairing-model is terminated! cat: SRX2745546.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2745546.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません 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 `SRX2745546.10_model.r'rm: cannot remove `SRX2745546.05_model.r': そのようなファイルやディレクトリはありません : そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745546.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745546.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745546.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745546.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling CompletedMACS2peakCalling INFO @ Fri, 28 Jul 2017 11:38:46: 11000000 INFO @ Fri, 28 Jul 2017 11:38:48: #1 tag size is determined as 75 bps INFO @ Fri, 28 Jul 2017 11:38:48: #1 tag size = 75 INFO @ Fri, 28 Jul 2017 11:38:48: #1 total tags in treatment: 5039763 INFO @ Fri, 28 Jul 2017 11:38:48: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:38:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:38:49: #1 tags after filtering in treatment: 3507738 INFO @ Fri, 28 Jul 2017 11:38:49: #1 Redundant rate of treatment: 0.30 INFO @ Fri, 28 Jul 2017 11:38:49: #1 finished! INFO @ Fri, 28 Jul 2017 11:38:49: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:38:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:38:49: #2 number of paired peaks: 29 WARNING @ Fri, 28 Jul 2017 11:38:49: Too few paired peaks (29) 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, 28 Jul 2017 11:38:49: Process for pairing-model is terminated! cat: SRX2745546.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2745546.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745546.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2745546.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。