Job ID = 9161964 sra ファイルのダウンロード中... Completed: 873812K bytes transferred in 10 seconds (673328K 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 14521858 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423696/SRR2930985.sra Written 14521858 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: 00:00:01 Multiseed full-index search: 00:11:48 14521858 reads; of these: 14521858 (100.00%) were paired; of these: 643515 (4.43%) aligned concordantly 0 times 12378982 (85.24%) aligned concordantly exactly 1 time 1499361 (10.32%) aligned concordantly >1 times ---- 643515 pairs aligned concordantly 0 times; of these: 27711 (4.31%) aligned discordantly 1 time ---- 615804 pairs aligned 0 times concordantly or discordantly; of these: 1231608 mates make up the pairs; of these: 1071030 (86.96%) aligned 0 times 128145 (10.40%) aligned exactly 1 time 32433 (2.63%) aligned >1 times 96.31% overall alignment rate Time searching: 00:11:49 Overall time: 00:11:49 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 12 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] 5121162 / 13881746 = 0.3689 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 05:25:09: # Command line: callpeak -t SRX1423696.bam -f BAM -g 12100000 -n SRX1423696.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423696.10 # format = BAM # ChIP-seq file = ['SRX1423696.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 05:25:09: # Command line: callpeak -t SRX1423696.bam -f BAM -g 12100000 -n SRX1423696.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423696.05 # format = BAM # ChIP-seq file = ['SRX1423696.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 05:25:09: # Command line: callpeak -t SRX1423696.bam -f BAM -g 12100000 -n SRX1423696.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423696.20 # format = BAM # ChIP-seq file = ['SRX1423696.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 05:25:09: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:25:09: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:25:09: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:25:09: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:25:09: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:25:09: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:25:16: 1000000 INFO @ Wed, 28 Jun 2017 05:25:16: 1000000 INFO @ Wed, 28 Jun 2017 05:25:16: 1000000 INFO @ Wed, 28 Jun 2017 05:25:23: 2000000 INFO @ Wed, 28 Jun 2017 05:25:23: 2000000 INFO @ Wed, 28 Jun 2017 05:25:23: 2000000 INFO @ Wed, 28 Jun 2017 05:25:30: 3000000 INFO @ Wed, 28 Jun 2017 05:25:31: 3000000 INFO @ Wed, 28 Jun 2017 05:25:31: 3000000 INFO @ Wed, 28 Jun 2017 05:25:37: 4000000 INFO @ Wed, 28 Jun 2017 05:25:38: 4000000 INFO @ Wed, 28 Jun 2017 05:25:38: 4000000 INFO @ Wed, 28 Jun 2017 05:25:44: 5000000 INFO @ Wed, 28 Jun 2017 05:25:46: 5000000 INFO @ Wed, 28 Jun 2017 05:25:46: 5000000 INFO @ Wed, 28 Jun 2017 05:25:50: 6000000 INFO @ Wed, 28 Jun 2017 05:25:53: 6000000 INFO @ Wed, 28 Jun 2017 05:25:53: 6000000 INFO @ Wed, 28 Jun 2017 05:25:57: 7000000 INFO @ Wed, 28 Jun 2017 05:26:01: 7000000 INFO @ Wed, 28 Jun 2017 05:26:01: 7000000 INFO @ Wed, 28 Jun 2017 05:26:04: 8000000 INFO @ Wed, 28 Jun 2017 05:26:08: 8000000 INFO @ Wed, 28 Jun 2017 05:26:08: 8000000 INFO @ Wed, 28 Jun 2017 05:26:11: 9000000 INFO @ Wed, 28 Jun 2017 05:26:16: 9000000 INFO @ Wed, 28 Jun 2017 05:26:16: 9000000 INFO @ Wed, 28 Jun 2017 05:26:17: 10000000 INFO @ Wed, 28 Jun 2017 05:26:23: 10000000 INFO @ Wed, 28 Jun 2017 05:26:23: 10000000 INFO @ Wed, 28 Jun 2017 05:26:24: 11000000 INFO @ Wed, 28 Jun 2017 05:26:31: 11000000 INFO @ Wed, 28 Jun 2017 05:26:31: 11000000 INFO @ Wed, 28 Jun 2017 05:26:31: 12000000 INFO @ Wed, 28 Jun 2017 05:26:38: 13000000 INFO @ Wed, 28 Jun 2017 05:26:38: 12000000 INFO @ Wed, 28 Jun 2017 05:26:38: 12000000 INFO @ Wed, 28 Jun 2017 05:26:44: 14000000 INFO @ Wed, 28 Jun 2017 05:26:46: 13000000 INFO @ Wed, 28 Jun 2017 05:26:46: 13000000 INFO @ Wed, 28 Jun 2017 05:26:51: 15000000 INFO @ Wed, 28 Jun 2017 05:26:53: 14000000 INFO @ Wed, 28 Jun 2017 05:26:53: 14000000 INFO @ Wed, 28 Jun 2017 05:26:57: 16000000 INFO @ Wed, 28 Jun 2017 05:27:00: 15000000 INFO @ Wed, 28 Jun 2017 05:27:00: 15000000 INFO @ Wed, 28 Jun 2017 05:27:04: 17000000 INFO @ Wed, 28 Jun 2017 05:27:08: 16000000 INFO @ Wed, 28 Jun 2017 05:27:08: 16000000 INFO @ Wed, 28 Jun 2017 05:27:08: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:27:08: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:27:08: #1 total tags in treatment: 8757978 INFO @ Wed, 28 Jun 2017 05:27:08: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:27:08: #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 05:27:09: #1 tags after filtering in treatment: 6869039 INFO @ Wed, 28 Jun 2017 05:27:09: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 28 Jun 2017 05:27:09: #1 finished! INFO @ Wed, 28 Jun 2017 05:27:09: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:27:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:27:09: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:27:09: 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 @ Wed, 28 Jun 2017 05:27:09: Process for pairing-model is terminated! cat: SRX1423696.05_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423696.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1423696.05_*.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 `SRX1423696.05_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 INFO @ Wed, 28 Jun 2017 05:27:15: 17000000 INFO @ Wed, 28 Jun 2017 05:27:15: 17000000 INFO @ Wed, 28 Jun 2017 05:27:20: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:27:20: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:27:20: #1 total tags in treatment: 8757978 INFO @ Wed, 28 Jun 2017 05:27:20: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:27:20: #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 05:27:20: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:27:20: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:27:20: #1 total tags in treatment: 8757978 INFO @ Wed, 28 Jun 2017 05:27:20: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:27:20: #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 05:27:20: #1 tags after filtering in treatment: 6869039 INFO @ Wed, 28 Jun 2017 05:27:20: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 28 Jun 2017 05:27:20: #1 finished! INFO @ Wed, 28 Jun 2017 05:27:20: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:27:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:27:20: #1 tags after filtering in treatment: 6869039 INFO @ Wed, 28 Jun 2017 05:27:20: #1 Redundant rate of treatment: 0.22 INFO @ Wed, 28 Jun 2017 05:27:20: #1 finished! INFO @ Wed, 28 Jun 2017 05:27:20: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:27:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:27:21: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:27:21: 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 @ Wed, 28 Jun 2017 05:27:21: Process for pairing-model is terminated! cat: SRX1423696.20_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 `SRX1423696.20_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 `SRX1423696.20_*.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 `SRX1423696.20_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 INFO @ Wed, 28 Jun 2017 05:27:21: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:27:21: 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 @ Wed, 28 Jun 2017 05:27:21: Process for pairing-model is terminated! cat: SRX1423696.10_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423696.10_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 `SRX1423696.10_*.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 `SRX1423696.10_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。