Job ID = 9160033 sra ファイルのダウンロード中... Completed: 1076236K bytes transferred in 15 seconds (574358K 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 7763858 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2574971/SRR5270920.sra Written 7763858 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: 00:08:56 7763858 reads; of these: 7763858 (100.00%) were paired; of these: 2744270 (35.35%) aligned concordantly 0 times 4361498 (56.18%) aligned concordantly exactly 1 time 658090 (8.48%) aligned concordantly >1 times ---- 2744270 pairs aligned concordantly 0 times; of these: 900514 (32.81%) aligned discordantly 1 time ---- 1843756 pairs aligned 0 times concordantly or discordantly; of these: 3687512 mates make up the pairs; of these: 3286014 (89.11%) aligned 0 times 124480 (3.38%) aligned exactly 1 time 277018 (7.51%) aligned >1 times 78.84% overall alignment rate Time searching: 00:08:56 Overall time: 00:08:56 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] 49512 / 5868883 = 0.0084 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 01:58:43: # Command line: callpeak -t SRX2574971.bam -f BAM -g 12100000 -n SRX2574971.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2574971.05 # format = BAM # ChIP-seq file = ['SRX2574971.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 01:58:43: # Command line: callpeak -t SRX2574971.bam -f BAM -g 12100000 -n SRX2574971.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2574971.20 # format = BAM # ChIP-seq file = ['SRX2574971.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 01:58:43: # Command line: callpeak -t SRX2574971.bam -f BAM -g 12100000 -n SRX2574971.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2574971.10 # format = BAM # ChIP-seq file = ['SRX2574971.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 01:58:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:58:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:58:43: #1 read tag files... INFO @ Wed, 28 Jun 2017 01:58:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:58:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:58:43: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 01:58:51: 1000000 INFO @ Wed, 28 Jun 2017 01:58:51: 1000000 INFO @ Wed, 28 Jun 2017 01:58:51: 1000000 INFO @ Wed, 28 Jun 2017 01:58:58: 2000000 INFO @ Wed, 28 Jun 2017 01:58:59: 2000000 INFO @ Wed, 28 Jun 2017 01:59:00: 2000000 INFO @ Wed, 28 Jun 2017 01:59:07: 3000000 INFO @ Wed, 28 Jun 2017 01:59:07: 3000000 INFO @ Wed, 28 Jun 2017 01:59:08: 3000000 INFO @ Wed, 28 Jun 2017 01:59:15: 4000000 INFO @ Wed, 28 Jun 2017 01:59:16: 4000000 INFO @ Wed, 28 Jun 2017 01:59:17: 4000000 INFO @ Wed, 28 Jun 2017 01:59:23: 5000000 INFO @ Wed, 28 Jun 2017 01:59:24: 5000000 INFO @ Wed, 28 Jun 2017 01:59:26: 5000000 INFO @ Wed, 28 Jun 2017 01:59:32: 6000000 INFO @ Wed, 28 Jun 2017 01:59:33: 6000000 INFO @ Wed, 28 Jun 2017 01:59:35: 6000000 INFO @ Wed, 28 Jun 2017 01:59:40: 7000000 INFO @ Wed, 28 Jun 2017 01:59:41: 7000000 INFO @ Wed, 28 Jun 2017 01:59:44: 7000000 INFO @ Wed, 28 Jun 2017 01:59:48: 8000000 INFO @ Wed, 28 Jun 2017 01:59:50: 8000000 INFO @ Wed, 28 Jun 2017 01:59:52: 8000000 INFO @ Wed, 28 Jun 2017 01:59:57: 9000000 INFO @ Wed, 28 Jun 2017 01:59:58: 9000000 INFO @ Wed, 28 Jun 2017 02:00:01: 9000000 INFO @ Wed, 28 Jun 2017 02:00:05: 10000000 INFO @ Wed, 28 Jun 2017 02:00:07: 10000000 INFO @ Wed, 28 Jun 2017 02:00:10: 10000000 INFO @ Wed, 28 Jun 2017 02:00:13: 11000000 INFO @ Wed, 28 Jun 2017 02:00:15: 11000000 INFO @ Wed, 28 Jun 2017 02:00:18: 11000000 INFO @ Wed, 28 Jun 2017 02:00:21: 12000000 INFO @ Wed, 28 Jun 2017 02:00:22: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 02:00:22: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 02:00:22: #1 total tags in treatment: 4980311 INFO @ Wed, 28 Jun 2017 02:00:22: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:00:22: #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 02:00:22: #1 tags after filtering in treatment: 4215360 INFO @ Wed, 28 Jun 2017 02:00:22: #1 Redundant rate of treatment: 0.15 INFO @ Wed, 28 Jun 2017 02:00:22: #1 finished! INFO @ Wed, 28 Jun 2017 02:00:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:00:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:00:23: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 02:00:23: Too few paired peaks (28) 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 02:00:23: Process for pairing-model is terminated! cat: SRX2574971.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2574971.10_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 `SRX2574971.10_*.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 `SRX2574971.10_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 INFO @ Wed, 28 Jun 2017 02:00:23: 12000000 INFO @ Wed, 28 Jun 2017 02:00:24: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 02:00:24: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 02:00:24: #1 total tags in treatment: 4980311 INFO @ Wed, 28 Jun 2017 02:00:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:00:24: #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 02:00:24: #1 tags after filtering in treatment: 4215360 INFO @ Wed, 28 Jun 2017 02:00:24: #1 Redundant rate of treatment: 0.15 INFO @ Wed, 28 Jun 2017 02:00:24: #1 finished! INFO @ Wed, 28 Jun 2017 02:00:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:00:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:00:24: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 02:00:24: Too few paired peaks (28) 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 02:00:24: Process for pairing-model is terminated! cat: SRX2574971.20_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 `SRX2574971.20_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 `SRX2574971.20_*.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 `SRX2574971.20_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 02:00:26: 12000000 INFO @ Wed, 28 Jun 2017 02:00:27: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 02:00:27: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 02:00:27: #1 total tags in treatment: 4980311 INFO @ Wed, 28 Jun 2017 02:00:27: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:00:27: #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 02:00:27: #1 tags after filtering in treatment: 4215360 INFO @ Wed, 28 Jun 2017 02:00:27: #1 Redundant rate of treatment: 0.15 INFO @ Wed, 28 Jun 2017 02:00:27: #1 finished! INFO @ Wed, 28 Jun 2017 02:00:27: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:00:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:00:27: #2 number of paired peaks: 28 WARNING @ Wed, 28 Jun 2017 02:00:27: Too few paired peaks (28) 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 02:00:27: Process for pairing-model is terminated! cat: SRX2574971.05_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 `SRX2574971.05_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 `SRX2574971.05_*.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 `SRX2574971.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。