Job ID = 9162420 sra ファイルのダウンロード中... Completed: 2889K bytes transferred in 2 seconds (9659K 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 32410 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457700/SRR5138815.sra Written 32410 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: 00:00:02 32410 reads; of these: 32410 (100.00%) were paired; of these: 8398 (25.91%) aligned concordantly 0 times 21054 (64.96%) aligned concordantly exactly 1 time 2958 (9.13%) aligned concordantly >1 times ---- 8398 pairs aligned concordantly 0 times; of these: 1215 (14.47%) aligned discordantly 1 time ---- 7183 pairs aligned 0 times concordantly or discordantly; of these: 14366 mates make up the pairs; of these: 13297 (92.56%) aligned 0 times 631 (4.39%) aligned exactly 1 time 438 (3.05%) aligned >1 times 79.49% overall alignment rate Time searching: 00:00:02 Overall time: 00:00:02 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_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] 457 / 25039 = 0.0183 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 @ Wed, 28 Jun 2017 07:42:26: # Command line: callpeak -t SRX2457700.bam -f BAM -g 12100000 -n SRX2457700.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457700.10 # format = BAM # ChIP-seq file = ['SRX2457700.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 @ Wed, 28 Jun 2017 07:42:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:42:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:42:26: # Command line: callpeak -t SRX2457700.bam -f BAM -g 12100000 -n SRX2457700.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457700.20 # format = BAM # ChIP-seq file = ['SRX2457700.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 @ Wed, 28 Jun 2017 07:42:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:42:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:42:26: # Command line: callpeak -t SRX2457700.bam -f BAM -g 12100000 -n SRX2457700.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457700.05 # format = BAM # ChIP-seq file = ['SRX2457700.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 @ Wed, 28 Jun 2017 07:42:26: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:42:26: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:42:26: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 07:42:26: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 07:42:26: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 07:42:26: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 07:42:26: #1 total tags in treatment: 23580 INFO @ Wed, 28 Jun 2017 07:42:26: #1 total tags in treatment: 23580 INFO @ Wed, 28 Jun 2017 07:42:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:42:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:42:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:42:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:42:26: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 07:42:26: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 07:42:26: #1 total tags in treatment: 23580 INFO @ Wed, 28 Jun 2017 07:42:26: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:42:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:42:26: #1 tags after filtering in treatment: 23455 INFO @ Wed, 28 Jun 2017 07:42:26: #1 tags after filtering in treatment: 23455 INFO @ Wed, 28 Jun 2017 07:42:26: #1 Redundant rate of treatment: 0.01 INFO @ Wed, 28 Jun 2017 07:42:26: #1 Redundant rate of treatment: 0.01 INFO @ Wed, 28 Jun 2017 07:42:26: #1 finished! INFO @ Wed, 28 Jun 2017 07:42:26: #1 finished! INFO @ Wed, 28 Jun 2017 07:42:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:42:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:42:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:42:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:42:26: #1 tags after filtering in treatment: 23455 INFO @ Wed, 28 Jun 2017 07:42:26: #1 Redundant rate of treatment: 0.01 INFO @ Wed, 28 Jun 2017 07:42:26: #1 finished! INFO @ Wed, 28 Jun 2017 07:42:26: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:42:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:42:26: #2 number of paired peaks: 53 WARNING @ Wed, 28 Jun 2017 07:42:26: Too few paired peaks (53) 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 @ Wed, 28 Jun 2017 07:42:26: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 07:42:26: #2 number of paired peaks: 53 WARNING @ Wed, 28 Jun 2017 07:42:26: Too few paired peaks (53) 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 @ Wed, 28 Jun 2017 07:42:26: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 07:42:26: #2 number of paired peaks: 53 WARNING @ Wed, 28 Jun 2017 07:42:26: Too few paired peaks (53) 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 @ Wed, 28 Jun 2017 07:42:26: Process for pairing-model is terminated! cat: SRX2457700.05_peaks.narrowPeakcat: SRX2457700.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません : そのようなファイルやディレクトリはありません cat: SRX2457700.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません 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 `SRX2457700.20_model.r'rm: pass1 - making usageList (0 chroms)cannot remove `SRX2457700.05_model.r': 1 millis : 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 `SRX2457700.20_*.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 `SRX2457700.05_*.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 `SRX2457700.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457700.05_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 rm: cannot remove `SRX2457700.10_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 `SRX2457700.10_*.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 `SRX2457700.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。