Job ID = 9163659 sra ファイルのダウンロード中... Completed: 451130K bytes transferred in 7 seconds (497271K 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 6763034 spots for /home/okishinya/chipatlas/results/sacCer3/SRX997174/SRR1976206.sra Written 6763034 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: 00:04:47 6763034 reads; of these: 6763034 (100.00%) were paired; of these: 1204730 (17.81%) aligned concordantly 0 times 3396569 (50.22%) aligned concordantly exactly 1 time 2161735 (31.96%) aligned concordantly >1 times ---- 1204730 pairs aligned concordantly 0 times; of these: 40650 (3.37%) aligned discordantly 1 time ---- 1164080 pairs aligned 0 times concordantly or discordantly; of these: 2328160 mates make up the pairs; of these: 2087078 (89.64%) aligned 0 times 132204 (5.68%) aligned exactly 1 time 108878 (4.68%) aligned >1 times 84.57% overall alignment rate Time searching: 00:04:47 Overall time: 00:04:47 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] 1549609 / 5563421 = 0.2785 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 11:20:12: # Command line: callpeak -t SRX997174.bam -f BAM -g 12100000 -n SRX997174.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX997174.05 # format = BAM # ChIP-seq file = ['SRX997174.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 11:20:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:20:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:20:12: # Command line: callpeak -t SRX997174.bam -f BAM -g 12100000 -n SRX997174.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX997174.10 # format = BAM # ChIP-seq file = ['SRX997174.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 11:20:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:20:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:20:12: # Command line: callpeak -t SRX997174.bam -f BAM -g 12100000 -n SRX997174.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX997174.20 # format = BAM # ChIP-seq file = ['SRX997174.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 11:20:12: #1 read tag files... INFO @ Wed, 28 Jun 2017 11:20:12: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 11:20:19: 1000000 INFO @ Wed, 28 Jun 2017 11:20:19: 1000000 INFO @ Wed, 28 Jun 2017 11:20:19: 1000000 INFO @ Wed, 28 Jun 2017 11:20:26: 2000000 INFO @ Wed, 28 Jun 2017 11:20:26: 2000000 INFO @ Wed, 28 Jun 2017 11:20:26: 2000000 INFO @ Wed, 28 Jun 2017 11:20:33: 3000000 INFO @ Wed, 28 Jun 2017 11:20:33: 3000000 INFO @ Wed, 28 Jun 2017 11:20:33: 3000000 INFO @ Wed, 28 Jun 2017 11:20:40: 4000000 INFO @ Wed, 28 Jun 2017 11:20:40: 4000000 INFO @ Wed, 28 Jun 2017 11:20:40: 4000000 INFO @ Wed, 28 Jun 2017 11:20:47: 5000000 INFO @ Wed, 28 Jun 2017 11:20:47: 5000000 INFO @ Wed, 28 Jun 2017 11:20:47: 5000000 INFO @ Wed, 28 Jun 2017 11:20:53: 6000000 INFO @ Wed, 28 Jun 2017 11:20:53: 6000000 INFO @ Wed, 28 Jun 2017 11:20:54: 6000000 INFO @ Wed, 28 Jun 2017 11:21:00: 7000000 INFO @ Wed, 28 Jun 2017 11:21:00: 7000000 INFO @ Wed, 28 Jun 2017 11:21:01: 7000000 INFO @ Wed, 28 Jun 2017 11:21:07: 8000000 INFO @ Wed, 28 Jun 2017 11:21:07: 8000000 INFO @ Wed, 28 Jun 2017 11:21:08: 8000000 INFO @ Wed, 28 Jun 2017 11:21:09: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:21:09: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:21:09: #1 total tags in treatment: 4008772 INFO @ Wed, 28 Jun 2017 11:21:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:21:09: #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 11:21:09: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:21:09: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:21:09: #1 total tags in treatment: 4008772 INFO @ Wed, 28 Jun 2017 11:21:09: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:21:09: #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 11:21:09: #1 tags after filtering in treatment: 2607766 INFO @ Wed, 28 Jun 2017 11:21:09: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 28 Jun 2017 11:21:09: #1 finished! INFO @ Wed, 28 Jun 2017 11:21:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:21:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:21:09: #1 tags after filtering in treatment: 2607766 INFO @ Wed, 28 Jun 2017 11:21:09: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 28 Jun 2017 11:21:09: #1 finished! INFO @ Wed, 28 Jun 2017 11:21:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:21:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:21:09: #2 number of paired peaks: 30 WARNING @ Wed, 28 Jun 2017 11:21:09: Too few paired peaks (30) 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 11:21:09: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 11:21:09: #2 number of paired peaks: 30 WARNING @ Wed, 28 Jun 2017 11:21:09: Too few paired peaks (30) 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 11:21:09: Process for pairing-model is terminated! cat: SRX997174.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX997174.10_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 `SRX997174.10_model.r'rm: cannot remove `SRX997174.05_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 `SRX997174.10_*.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 `SRX997174.05_*.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 `SRX997174.10_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 `SRX997174.05_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 @ Wed, 28 Jun 2017 11:21:10: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 11:21:10: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 11:21:10: #1 total tags in treatment: 4008772 INFO @ Wed, 28 Jun 2017 11:21:10: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 11:21:10: #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 11:21:10: #1 tags after filtering in treatment: 2607766 INFO @ Wed, 28 Jun 2017 11:21:10: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 28 Jun 2017 11:21:10: #1 finished! INFO @ Wed, 28 Jun 2017 11:21:10: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 11:21:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 11:21:10: #2 number of paired peaks: 30 WARNING @ Wed, 28 Jun 2017 11:21:10: Too few paired peaks (30) 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 11:21:10: Process for pairing-model is terminated! cat: SRX997174.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX997174.20_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 `SRX997174.20_*.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 `SRX997174.20_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。