Job ID = 9161978 sra ファイルのダウンロード中... Completed: 1920074K bytes transferred in 19 seconds (812855K 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 32460758 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423710/SRR2930999.sra Written 32460758 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: 00:15:01 32460758 reads; of these: 32460758 (100.00%) were paired; of these: 15831959 (48.77%) aligned concordantly 0 times 15325409 (47.21%) aligned concordantly exactly 1 time 1303390 (4.02%) aligned concordantly >1 times ---- 15831959 pairs aligned concordantly 0 times; of these: 286494 (1.81%) aligned discordantly 1 time ---- 15545465 pairs aligned 0 times concordantly or discordantly; of these: 31090930 mates make up the pairs; of these: 30427602 (97.87%) aligned 0 times 542701 (1.75%) aligned exactly 1 time 120627 (0.39%) aligned >1 times 53.13% overall alignment rate Time searching: 00:15:01 Overall time: 00:15:01 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] 7043215 / 16881997 = 0.4172 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 05:35:42: # Command line: callpeak -t SRX1423710.bam -f BAM -g 12100000 -n SRX1423710.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423710.10 # format = BAM # ChIP-seq file = ['SRX1423710.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 05:35:42: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:35:42: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:35:42: # Command line: callpeak -t SRX1423710.bam -f BAM -g 12100000 -n SRX1423710.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423710.05 # format = BAM # ChIP-seq file = ['SRX1423710.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 05:35:42: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:35:42: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:35:42: # Command line: callpeak -t SRX1423710.bam -f BAM -g 12100000 -n SRX1423710.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423710.20 # format = BAM # ChIP-seq file = ['SRX1423710.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 05:35:42: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:35:42: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:35:49: 1000000 INFO @ Wed, 28 Jun 2017 05:35:49: 1000000 INFO @ Wed, 28 Jun 2017 05:35:49: 1000000 INFO @ Wed, 28 Jun 2017 05:35:55: 2000000 INFO @ Wed, 28 Jun 2017 05:35:56: 2000000 INFO @ Wed, 28 Jun 2017 05:35:56: 2000000 INFO @ Wed, 28 Jun 2017 05:36:01: 3000000 INFO @ Wed, 28 Jun 2017 05:36:04: 3000000 INFO @ Wed, 28 Jun 2017 05:36:04: 3000000 INFO @ Wed, 28 Jun 2017 05:36:07: 4000000 INFO @ Wed, 28 Jun 2017 05:36:11: 4000000 INFO @ Wed, 28 Jun 2017 05:36:11: 4000000 INFO @ Wed, 28 Jun 2017 05:36:13: 5000000 INFO @ Wed, 28 Jun 2017 05:36:18: 5000000 INFO @ Wed, 28 Jun 2017 05:36:18: 5000000 INFO @ Wed, 28 Jun 2017 05:36:19: 6000000 INFO @ Wed, 28 Jun 2017 05:36:25: 6000000 INFO @ Wed, 28 Jun 2017 05:36:25: 6000000 INFO @ Wed, 28 Jun 2017 05:36:26: 7000000 INFO @ Wed, 28 Jun 2017 05:36:32: 8000000 INFO @ Wed, 28 Jun 2017 05:36:32: 7000000 INFO @ Wed, 28 Jun 2017 05:36:32: 7000000 INFO @ Wed, 28 Jun 2017 05:36:38: 9000000 INFO @ Wed, 28 Jun 2017 05:36:39: 8000000 INFO @ Wed, 28 Jun 2017 05:36:39: 8000000 INFO @ Wed, 28 Jun 2017 05:36:44: 10000000 INFO @ Wed, 28 Jun 2017 05:36:46: 9000000 INFO @ Wed, 28 Jun 2017 05:36:46: 9000000 INFO @ Wed, 28 Jun 2017 05:36:50: 11000000 INFO @ Wed, 28 Jun 2017 05:36:53: 10000000 INFO @ Wed, 28 Jun 2017 05:36:53: 10000000 INFO @ Wed, 28 Jun 2017 05:36:56: 12000000 INFO @ Wed, 28 Jun 2017 05:37:00: 11000000 INFO @ Wed, 28 Jun 2017 05:37:00: 11000000 INFO @ Wed, 28 Jun 2017 05:37:02: 13000000 INFO @ Wed, 28 Jun 2017 05:37:07: 12000000 INFO @ Wed, 28 Jun 2017 05:37:07: 12000000 INFO @ Wed, 28 Jun 2017 05:37:08: 14000000 INFO @ Wed, 28 Jun 2017 05:37:14: 13000000 INFO @ Wed, 28 Jun 2017 05:37:14: 13000000 INFO @ Wed, 28 Jun 2017 05:37:14: 15000000 INFO @ Wed, 28 Jun 2017 05:37:21: 16000000 INFO @ Wed, 28 Jun 2017 05:37:21: 14000000 INFO @ Wed, 28 Jun 2017 05:37:21: 14000000 INFO @ Wed, 28 Jun 2017 05:37:27: 17000000 INFO @ Wed, 28 Jun 2017 05:37:27: 15000000 INFO @ Wed, 28 Jun 2017 05:37:27: 15000000 INFO @ Wed, 28 Jun 2017 05:37:33: 18000000 INFO @ Wed, 28 Jun 2017 05:37:34: 16000000 INFO @ Wed, 28 Jun 2017 05:37:34: 16000000 INFO @ Wed, 28 Jun 2017 05:37:39: 19000000 INFO @ Wed, 28 Jun 2017 05:37:41: 17000000 INFO @ Wed, 28 Jun 2017 05:37:41: 17000000 INFO @ Wed, 28 Jun 2017 05:37:45: 20000000 INFO @ Wed, 28 Jun 2017 05:37:47: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:37:47: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:37:47: #1 total tags in treatment: 9629016 INFO @ Wed, 28 Jun 2017 05:37:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:37:47: #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 05:37:48: #1 tags after filtering in treatment: 6734193 INFO @ Wed, 28 Jun 2017 05:37:48: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 05:37:48: #1 finished! INFO @ Wed, 28 Jun 2017 05:37:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:37:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:37:48: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:37:48: 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 05:37:48: Process for pairing-model is terminated! cat: SRX1423710.10_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 `SRX1423710.10_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 `SRX1423710.10_*.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 `SRX1423710.10_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 05:37:48: 18000000 INFO @ Wed, 28 Jun 2017 05:37:48: 18000000 INFO @ Wed, 28 Jun 2017 05:37:55: 19000000 INFO @ Wed, 28 Jun 2017 05:37:55: 19000000 INFO @ Wed, 28 Jun 2017 05:38:02: 20000000 INFO @ Wed, 28 Jun 2017 05:38:02: 20000000 INFO @ Wed, 28 Jun 2017 05:38:05: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:05: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:05: #1 total tags in treatment: 9629016 INFO @ Wed, 28 Jun 2017 05:38:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:05: #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 05:38:05: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:38:05: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:38:05: #1 total tags in treatment: 9629016 INFO @ Wed, 28 Jun 2017 05:38:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:38:05: #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 05:38:05: #1 tags after filtering in treatment: 6734193 INFO @ Wed, 28 Jun 2017 05:38:05: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 05:38:05: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:05: #1 tags after filtering in treatment: 6734193 INFO @ Wed, 28 Jun 2017 05:38:05: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 28 Jun 2017 05:38:05: #1 finished! INFO @ Wed, 28 Jun 2017 05:38:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:38:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:38:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:06: 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 05:38:06: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 05:38:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:38:06: 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 05:38:06: Process for pairing-model is terminated! cat: SRX1423710.05_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: SRX1423710.20_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) rm: cannot remove `SRX1423710.05_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 `SRX1423710.05_*.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 `SRX1423710.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423710.20_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 `SRX1423710.20_*.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 `SRX1423710.20_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。