Job ID = 9160183 sra ファイルのダウンロード中... Completed: 1245039K bytes transferred in 94 seconds (107454K 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 20254538 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831030/SRR5572349.sra Written 20254538 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: 00:18:03 20254538 reads; of these: 20254538 (100.00%) were paired; of these: 1492969 (7.37%) aligned concordantly 0 times 10519681 (51.94%) aligned concordantly exactly 1 time 8241888 (40.69%) aligned concordantly >1 times ---- 1492969 pairs aligned concordantly 0 times; of these: 317737 (21.28%) aligned discordantly 1 time ---- 1175232 pairs aligned 0 times concordantly or discordantly; of these: 2350464 mates make up the pairs; of these: 1629354 (69.32%) aligned 0 times 390817 (16.63%) aligned exactly 1 time 330293 (14.05%) aligned >1 times 95.98% overall alignment rate Time searching: 00:18:03 Overall time: 00:18:03 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] 8315251 / 18799051 = 0.4423 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 02:30:39: # Command line: callpeak -t SRX2831030.bam -f BAM -g 12100000 -n SRX2831030.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2831030.10 # format = BAM # ChIP-seq file = ['SRX2831030.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 02:30:39: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:30:39: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:30:39: # Command line: callpeak -t SRX2831030.bam -f BAM -g 12100000 -n SRX2831030.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2831030.20 # format = BAM # ChIP-seq file = ['SRX2831030.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 02:30:39: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:30:39: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:30:39: # Command line: callpeak -t SRX2831030.bam -f BAM -g 12100000 -n SRX2831030.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2831030.05 # format = BAM # ChIP-seq file = ['SRX2831030.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 02:30:39: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:30:39: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:30:46: 1000000 INFO @ Wed, 28 Jun 2017 02:30:46: 1000000 INFO @ Wed, 28 Jun 2017 02:30:46: 1000000 INFO @ Wed, 28 Jun 2017 02:30:52: 2000000 INFO @ Wed, 28 Jun 2017 02:30:52: 2000000 INFO @ Wed, 28 Jun 2017 02:30:52: 2000000 INFO @ Wed, 28 Jun 2017 02:30:58: 3000000 INFO @ Wed, 28 Jun 2017 02:30:59: 3000000 INFO @ Wed, 28 Jun 2017 02:30:59: 3000000 INFO @ Wed, 28 Jun 2017 02:31:04: 4000000 INFO @ Wed, 28 Jun 2017 02:31:05: 4000000 INFO @ Wed, 28 Jun 2017 02:31:05: 4000000 INFO @ Wed, 28 Jun 2017 02:31:10: 5000000 INFO @ Wed, 28 Jun 2017 02:31:11: 5000000 INFO @ Wed, 28 Jun 2017 02:31:11: 5000000 INFO @ Wed, 28 Jun 2017 02:31:16: 6000000 INFO @ Wed, 28 Jun 2017 02:31:17: 6000000 INFO @ Wed, 28 Jun 2017 02:31:17: 6000000 INFO @ Wed, 28 Jun 2017 02:31:22: 7000000 INFO @ Wed, 28 Jun 2017 02:31:24: 7000000 INFO @ Wed, 28 Jun 2017 02:31:24: 7000000 INFO @ Wed, 28 Jun 2017 02:31:28: 8000000 INFO @ Wed, 28 Jun 2017 02:31:30: 8000000 INFO @ Wed, 28 Jun 2017 02:31:30: 8000000 INFO @ Wed, 28 Jun 2017 02:31:34: 9000000 INFO @ Wed, 28 Jun 2017 02:31:36: 9000000 INFO @ Wed, 28 Jun 2017 02:31:36: 9000000 INFO @ Wed, 28 Jun 2017 02:31:40: 10000000 INFO @ Wed, 28 Jun 2017 02:31:42: 10000000 INFO @ Wed, 28 Jun 2017 02:31:42: 10000000 INFO @ Wed, 28 Jun 2017 02:31:46: 11000000 INFO @ Wed, 28 Jun 2017 02:31:48: 11000000 INFO @ Wed, 28 Jun 2017 02:31:48: 11000000 INFO @ Wed, 28 Jun 2017 02:31:52: 12000000 INFO @ Wed, 28 Jun 2017 02:31:54: 12000000 INFO @ Wed, 28 Jun 2017 02:31:54: 12000000 INFO @ Wed, 28 Jun 2017 02:31:58: 13000000 INFO @ Wed, 28 Jun 2017 02:32:01: 13000000 INFO @ Wed, 28 Jun 2017 02:32:01: 13000000 INFO @ Wed, 28 Jun 2017 02:32:04: 14000000 INFO @ Wed, 28 Jun 2017 02:32:09: 14000000 INFO @ Wed, 28 Jun 2017 02:32:09: 14000000 INFO @ Wed, 28 Jun 2017 02:32:10: 15000000 INFO @ Wed, 28 Jun 2017 02:32:16: 16000000 INFO @ Wed, 28 Jun 2017 02:32:17: 15000000 INFO @ Wed, 28 Jun 2017 02:32:17: 15000000 INFO @ Wed, 28 Jun 2017 02:32:22: 17000000 INFO @ Wed, 28 Jun 2017 02:32:26: 16000000 INFO @ Wed, 28 Jun 2017 02:32:26: 16000000 INFO @ Wed, 28 Jun 2017 02:32:28: 18000000 INFO @ Wed, 28 Jun 2017 02:32:34: 17000000 INFO @ Wed, 28 Jun 2017 02:32:34: 17000000 INFO @ Wed, 28 Jun 2017 02:32:35: 19000000 INFO @ Wed, 28 Jun 2017 02:32:42: 20000000 INFO @ Wed, 28 Jun 2017 02:32:43: 18000000 INFO @ Wed, 28 Jun 2017 02:32:43: 18000000 INFO @ Wed, 28 Jun 2017 02:32:49: 21000000 INFO @ Wed, 28 Jun 2017 02:32:52: 19000000 INFO @ Wed, 28 Jun 2017 02:32:52: 19000000 INFO @ Wed, 28 Jun 2017 02:32:55: 22000000 INFO @ Wed, 28 Jun 2017 02:32:56: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:32:56: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:32:56: #1 total tags in treatment: 10455499 INFO @ Wed, 28 Jun 2017 02:32:56: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:32:56: #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 02:32:57: #1 tags after filtering in treatment: 5806310 INFO @ Wed, 28 Jun 2017 02:32:57: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 28 Jun 2017 02:32:57: #1 finished! INFO @ Wed, 28 Jun 2017 02:32:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:32:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:32:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:32:57: 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 02:32:57: Process for pairing-model is terminated! cat: SRX2831030.05_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 `SRX2831030.05_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 `SRX2831030.05_*.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 `SRX2831030.05_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 02:33:00: 20000000 INFO @ Wed, 28 Jun 2017 02:33:00: 20000000 INFO @ Wed, 28 Jun 2017 02:33:06: 21000000 INFO @ Wed, 28 Jun 2017 02:33:06: 21000000 INFO @ Wed, 28 Jun 2017 02:33:12: 22000000 INFO @ Wed, 28 Jun 2017 02:33:12: 22000000 INFO @ Wed, 28 Jun 2017 02:33:14: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:33:14: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:33:14: #1 total tags in treatment: 10455499 INFO @ Wed, 28 Jun 2017 02:33:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:33:14: #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 02:33:14: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:33:14: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:33:14: #1 total tags in treatment: 10455499 INFO @ Wed, 28 Jun 2017 02:33:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:33:14: #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 02:33:14: #1 tags after filtering in treatment: 5806310 INFO @ Wed, 28 Jun 2017 02:33:14: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 28 Jun 2017 02:33:14: #1 finished! INFO @ Wed, 28 Jun 2017 02:33:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:33:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:33:14: #1 tags after filtering in treatment: 5806310 INFO @ Wed, 28 Jun 2017 02:33:14: #1 Redundant rate of treatment: 0.44 INFO @ Wed, 28 Jun 2017 02:33:14: #1 finished! INFO @ Wed, 28 Jun 2017 02:33:14: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:33:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:33:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:33:15: 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 02:33:15: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 02:33:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:33:15: 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 02:33:15: Process for pairing-model is terminated! cat: SRX2831030.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) cat: SRX2831030.10_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 `SRX2831030.20_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 `SRX2831030.20_*.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 `SRX2831030.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2831030.10_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 `SRX2831030.10_*.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 `SRX2831030.10_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。