Job ID = 9161951 sra ファイルのダウンロード中... Completed: 1458697K bytes transferred in 14 seconds (818387K 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 23409609 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423685/SRR2930974.sra Written 23409609 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: 00:15:35 23409609 reads; of these: 23409609 (100.00%) were paired; of these: 5904465 (25.22%) aligned concordantly 0 times 14734149 (62.94%) aligned concordantly exactly 1 time 2770995 (11.84%) aligned concordantly >1 times ---- 5904465 pairs aligned concordantly 0 times; of these: 501404 (8.49%) aligned discordantly 1 time ---- 5403061 pairs aligned 0 times concordantly or discordantly; of these: 10806122 mates make up the pairs; of these: 10468246 (96.87%) aligned 0 times 124193 (1.15%) aligned exactly 1 time 213683 (1.98%) aligned >1 times 77.64% overall alignment rate Time searching: 00:15:35 Overall time: 00:15:35 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 16 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] 3835101 / 17988934 = 0.2132 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 05:31:04: # Command line: callpeak -t SRX1423685.bam -f BAM -g 12100000 -n SRX1423685.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423685.05 # format = BAM # ChIP-seq file = ['SRX1423685.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 05:31:04: # Command line: callpeak -t SRX1423685.bam -f BAM -g 12100000 -n SRX1423685.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423685.10 # format = BAM # ChIP-seq file = ['SRX1423685.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 05:31:04: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:31:04: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:31:04: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:31:04: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:31:04: # Command line: callpeak -t SRX1423685.bam -f BAM -g 12100000 -n SRX1423685.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423685.20 # format = BAM # ChIP-seq file = ['SRX1423685.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 05:31:04: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:31:04: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:31:11: 1000000 INFO @ Wed, 28 Jun 2017 05:31:11: 1000000 INFO @ Wed, 28 Jun 2017 05:31:11: 1000000 INFO @ Wed, 28 Jun 2017 05:31:18: 2000000 INFO @ Wed, 28 Jun 2017 05:31:18: 2000000 INFO @ Wed, 28 Jun 2017 05:31:18: 2000000 INFO @ Wed, 28 Jun 2017 05:31:25: 3000000 INFO @ Wed, 28 Jun 2017 05:31:25: 3000000 INFO @ Wed, 28 Jun 2017 05:31:26: 3000000 INFO @ Wed, 28 Jun 2017 05:31:32: 4000000 INFO @ Wed, 28 Jun 2017 05:31:32: 4000000 INFO @ Wed, 28 Jun 2017 05:31:33: 4000000 INFO @ Wed, 28 Jun 2017 05:31:38: 5000000 INFO @ Wed, 28 Jun 2017 05:31:38: 5000000 INFO @ Wed, 28 Jun 2017 05:31:41: 5000000 INFO @ Wed, 28 Jun 2017 05:31:45: 6000000 INFO @ Wed, 28 Jun 2017 05:31:45: 6000000 INFO @ Wed, 28 Jun 2017 05:31:48: 6000000 INFO @ Wed, 28 Jun 2017 05:31:51: 7000000 INFO @ Wed, 28 Jun 2017 05:31:51: 7000000 INFO @ Wed, 28 Jun 2017 05:31:56: 7000000 INFO @ Wed, 28 Jun 2017 05:31:58: 8000000 INFO @ Wed, 28 Jun 2017 05:31:58: 8000000 INFO @ Wed, 28 Jun 2017 05:32:03: 8000000 INFO @ Wed, 28 Jun 2017 05:32:04: 9000000 INFO @ Wed, 28 Jun 2017 05:32:04: 9000000 INFO @ Wed, 28 Jun 2017 05:32:11: 9000000 INFO @ Wed, 28 Jun 2017 05:32:11: 10000000 INFO @ Wed, 28 Jun 2017 05:32:11: 10000000 INFO @ Wed, 28 Jun 2017 05:32:18: 11000000 INFO @ Wed, 28 Jun 2017 05:32:18: 11000000 INFO @ Wed, 28 Jun 2017 05:32:18: 10000000 INFO @ Wed, 28 Jun 2017 05:32:24: 12000000 INFO @ Wed, 28 Jun 2017 05:32:24: 12000000 INFO @ Wed, 28 Jun 2017 05:32:25: 11000000 INFO @ Wed, 28 Jun 2017 05:32:31: 13000000 INFO @ Wed, 28 Jun 2017 05:32:31: 13000000 INFO @ Wed, 28 Jun 2017 05:32:32: 12000000 INFO @ Wed, 28 Jun 2017 05:32:38: 14000000 INFO @ Wed, 28 Jun 2017 05:32:38: 14000000 INFO @ Wed, 28 Jun 2017 05:32:38: 13000000 INFO @ Wed, 28 Jun 2017 05:32:45: 14000000 INFO @ Wed, 28 Jun 2017 05:32:45: 15000000 INFO @ Wed, 28 Jun 2017 05:32:45: 15000000 INFO @ Wed, 28 Jun 2017 05:32:51: 15000000 INFO @ Wed, 28 Jun 2017 05:32:52: 16000000 INFO @ Wed, 28 Jun 2017 05:32:52: 16000000 INFO @ Wed, 28 Jun 2017 05:32:58: 16000000 INFO @ Wed, 28 Jun 2017 05:32:59: 17000000 INFO @ Wed, 28 Jun 2017 05:32:59: 17000000 INFO @ Wed, 28 Jun 2017 05:33:05: 17000000 INFO @ Wed, 28 Jun 2017 05:33:06: 18000000 INFO @ Wed, 28 Jun 2017 05:33:06: 18000000 INFO @ Wed, 28 Jun 2017 05:33:11: 18000000 INFO @ Wed, 28 Jun 2017 05:33:13: 19000000 INFO @ Wed, 28 Jun 2017 05:33:13: 19000000 INFO @ Wed, 28 Jun 2017 05:33:18: 19000000 INFO @ Wed, 28 Jun 2017 05:33:19: 20000000 INFO @ Wed, 28 Jun 2017 05:33:19: 20000000 INFO @ Wed, 28 Jun 2017 05:33:25: 20000000 INFO @ Wed, 28 Jun 2017 05:33:26: 21000000 INFO @ Wed, 28 Jun 2017 05:33:26: 21000000 INFO @ Wed, 28 Jun 2017 05:33:32: 21000000 INFO @ Wed, 28 Jun 2017 05:33:33: 22000000 INFO @ Wed, 28 Jun 2017 05:33:33: 22000000 INFO @ Wed, 28 Jun 2017 05:33:39: 23000000 INFO @ Wed, 28 Jun 2017 05:33:39: 23000000 INFO @ Wed, 28 Jun 2017 05:33:39: 22000000 INFO @ Wed, 28 Jun 2017 05:33:47: 24000000 INFO @ Wed, 28 Jun 2017 05:33:47: 24000000 INFO @ Wed, 28 Jun 2017 05:33:47: 23000000 INFO @ Wed, 28 Jun 2017 05:33:55: 25000000 INFO @ Wed, 28 Jun 2017 05:33:55: 25000000 INFO @ Wed, 28 Jun 2017 05:33:57: 24000000 INFO @ Wed, 28 Jun 2017 05:34:03: 26000000 INFO @ Wed, 28 Jun 2017 05:34:03: 26000000 INFO @ Wed, 28 Jun 2017 05:34:06: 25000000 INFO @ Wed, 28 Jun 2017 05:34:11: 27000000 INFO @ Wed, 28 Jun 2017 05:34:11: 27000000 INFO @ Wed, 28 Jun 2017 05:34:16: 26000000 INFO @ Wed, 28 Jun 2017 05:34:18: 28000000 INFO @ Wed, 28 Jun 2017 05:34:18: 28000000 INFO @ Wed, 28 Jun 2017 05:34:24: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:34:24: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:34:24: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:34:24: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:34:24: #1 total tags in treatment: 13710506 INFO @ Wed, 28 Jun 2017 05:34:24: #1 total tags in treatment: 13710506 INFO @ Wed, 28 Jun 2017 05:34:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:34:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:34:24: #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 05:34:24: #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 05:34:24: #1 tags after filtering in treatment: 9412855 INFO @ Wed, 28 Jun 2017 05:34:24: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:34:24: #1 finished! INFO @ Wed, 28 Jun 2017 05:34:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:34:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:34:24: #1 tags after filtering in treatment: 9412855 INFO @ Wed, 28 Jun 2017 05:34:24: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:34:24: #1 finished! INFO @ Wed, 28 Jun 2017 05:34:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:34:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:34:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:34:25: 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 05:34:25: Process for pairing-model is terminated! cat: SRX1423685.05_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 `SRX1423685.05_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 `SRX1423685.05_*.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 `SRX1423685.05_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 05:34:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:34:25: 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 05:34:25: Process for pairing-model is terminated! cat: SRX1423685.10_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 `SRX1423685.10_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 `SRX1423685.10_*.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 `SRX1423685.10_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 05:34:26: 27000000 INFO @ Wed, 28 Jun 2017 05:34:35: 28000000 INFO @ Wed, 28 Jun 2017 05:34:41: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:34:41: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:34:41: #1 total tags in treatment: 13710506 INFO @ Wed, 28 Jun 2017 05:34:41: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:34:41: #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 05:34:42: #1 tags after filtering in treatment: 9412855 INFO @ Wed, 28 Jun 2017 05:34:42: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:34:42: #1 finished! INFO @ Wed, 28 Jun 2017 05:34:42: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:34:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:34:42: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:34:42: 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 05:34:42: Process for pairing-model is terminated! cat: SRX1423685.20_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 `SRX1423685.20_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 `SRX1423685.20_*.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 `SRX1423685.20_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。