Job ID = 9161949 sra ファイルのダウンロード中... Completed: 1340428K bytes transferred in 14 seconds (769297K 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 22386501 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423683/SRR2930972.sra Written 22386501 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: 00:11:25 22386501 reads; of these: 22386501 (100.00%) were paired; of these: 9823506 (43.88%) aligned concordantly 0 times 11030724 (49.27%) aligned concordantly exactly 1 time 1532271 (6.84%) aligned concordantly >1 times ---- 9823506 pairs aligned concordantly 0 times; of these: 63734 (0.65%) aligned discordantly 1 time ---- 9759772 pairs aligned 0 times concordantly or discordantly; of these: 19519544 mates make up the pairs; of these: 19294270 (98.85%) aligned 0 times 173982 (0.89%) aligned exactly 1 time 51292 (0.26%) aligned >1 times 56.91% overall alignment rate Time searching: 00:11:25 Overall time: 00:11:25 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] 961290 / 12613501 = 0.0762 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 05:23:38: # Command line: callpeak -t SRX1423683.bam -f BAM -g 12100000 -n SRX1423683.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423683.10 # format = BAM # ChIP-seq file = ['SRX1423683.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 05:23:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:38: # Command line: callpeak -t SRX1423683.bam -f BAM -g 12100000 -n SRX1423683.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423683.20 # format = BAM # ChIP-seq file = ['SRX1423683.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 05:23:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:38: # Command line: callpeak -t SRX1423683.bam -f BAM -g 12100000 -n SRX1423683.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423683.05 # format = BAM # ChIP-seq file = ['SRX1423683.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 05:23:38: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:23:38: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:23:46: 1000000 INFO @ Wed, 28 Jun 2017 05:23:46: 1000000 INFO @ Wed, 28 Jun 2017 05:23:46: 1000000 INFO @ Wed, 28 Jun 2017 05:23:53: 2000000 INFO @ Wed, 28 Jun 2017 05:23:53: 2000000 INFO @ Wed, 28 Jun 2017 05:23:54: 2000000 INFO @ Wed, 28 Jun 2017 05:24:01: 3000000 INFO @ Wed, 28 Jun 2017 05:24:01: 3000000 INFO @ Wed, 28 Jun 2017 05:24:02: 3000000 INFO @ Wed, 28 Jun 2017 05:24:09: 4000000 INFO @ Wed, 28 Jun 2017 05:24:09: 4000000 INFO @ Wed, 28 Jun 2017 05:24:10: 4000000 INFO @ Wed, 28 Jun 2017 05:24:17: 5000000 INFO @ Wed, 28 Jun 2017 05:24:17: 5000000 INFO @ Wed, 28 Jun 2017 05:24:18: 5000000 INFO @ Wed, 28 Jun 2017 05:24:25: 6000000 INFO @ Wed, 28 Jun 2017 05:24:25: 6000000 INFO @ Wed, 28 Jun 2017 05:24:27: 6000000 INFO @ Wed, 28 Jun 2017 05:24:33: 7000000 INFO @ Wed, 28 Jun 2017 05:24:33: 7000000 INFO @ Wed, 28 Jun 2017 05:24:35: 7000000 INFO @ Wed, 28 Jun 2017 05:24:41: 8000000 INFO @ Wed, 28 Jun 2017 05:24:41: 8000000 INFO @ Wed, 28 Jun 2017 05:24:43: 8000000 INFO @ Wed, 28 Jun 2017 05:24:49: 9000000 INFO @ Wed, 28 Jun 2017 05:24:49: 9000000 INFO @ Wed, 28 Jun 2017 05:24:51: 9000000 INFO @ Wed, 28 Jun 2017 05:24:57: 10000000 INFO @ Wed, 28 Jun 2017 05:24:57: 10000000 INFO @ Wed, 28 Jun 2017 05:24:59: 10000000 INFO @ Wed, 28 Jun 2017 05:25:03: 11000000 INFO @ Wed, 28 Jun 2017 05:25:03: 11000000 INFO @ Wed, 28 Jun 2017 05:25:05: 11000000 INFO @ Wed, 28 Jun 2017 05:25:10: 12000000 INFO @ Wed, 28 Jun 2017 05:25:10: 12000000 INFO @ Wed, 28 Jun 2017 05:25:11: 12000000 INFO @ Wed, 28 Jun 2017 05:25:17: 13000000 INFO @ Wed, 28 Jun 2017 05:25:17: 13000000 INFO @ Wed, 28 Jun 2017 05:25:17: 13000000 INFO @ Wed, 28 Jun 2017 05:25:24: 14000000 INFO @ Wed, 28 Jun 2017 05:25:24: 14000000 INFO @ Wed, 28 Jun 2017 05:25:24: 14000000 INFO @ Wed, 28 Jun 2017 05:25:30: 15000000 INFO @ Wed, 28 Jun 2017 05:25:30: 15000000 INFO @ Wed, 28 Jun 2017 05:25:30: 15000000 INFO @ Wed, 28 Jun 2017 05:25:36: 16000000 INFO @ Wed, 28 Jun 2017 05:25:37: 16000000 INFO @ Wed, 28 Jun 2017 05:25:37: 16000000 INFO @ Wed, 28 Jun 2017 05:25:42: 17000000 INFO @ Wed, 28 Jun 2017 05:25:44: 17000000 INFO @ Wed, 28 Jun 2017 05:25:44: 17000000 INFO @ Wed, 28 Jun 2017 05:25:48: 18000000 INFO @ Wed, 28 Jun 2017 05:25:51: 18000000 INFO @ Wed, 28 Jun 2017 05:25:51: 18000000 INFO @ Wed, 28 Jun 2017 05:25:55: 19000000 INFO @ Wed, 28 Jun 2017 05:25:58: 19000000 INFO @ Wed, 28 Jun 2017 05:25:58: 19000000 INFO @ Wed, 28 Jun 2017 05:26:01: 20000000 INFO @ Wed, 28 Jun 2017 05:26:05: 20000000 INFO @ Wed, 28 Jun 2017 05:26:05: 20000000 INFO @ Wed, 28 Jun 2017 05:26:07: 21000000 INFO @ Wed, 28 Jun 2017 05:26:12: 21000000 INFO @ Wed, 28 Jun 2017 05:26:12: 21000000 INFO @ Wed, 28 Jun 2017 05:26:13: 22000000 INFO @ Wed, 28 Jun 2017 05:26:18: 22000000 INFO @ Wed, 28 Jun 2017 05:26:18: 22000000 INFO @ Wed, 28 Jun 2017 05:26:20: 23000000 INFO @ Wed, 28 Jun 2017 05:26:23: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:26:23: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:26:23: #1 total tags in treatment: 11603039 INFO @ Wed, 28 Jun 2017 05:26:23: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:26:23: #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 05:26:24: #1 tags after filtering in treatment: 8523909 INFO @ Wed, 28 Jun 2017 05:26:24: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 28 Jun 2017 05:26:24: #1 finished! INFO @ Wed, 28 Jun 2017 05:26:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:26:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:26:24: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:26:24: 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 05:26:24: Process for pairing-model is terminated! cat: SRX1423683.20_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 `SRX1423683.20_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 `SRX1423683.20_*.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 `SRX1423683.20_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 05:26:25: 23000000 INFO @ Wed, 28 Jun 2017 05:26:25: 23000000 INFO @ Wed, 28 Jun 2017 05:26:29: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:26:29: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:26:29: #1 total tags in treatment: 11603039 INFO @ Wed, 28 Jun 2017 05:26:29: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:26:29: #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 05:26:29: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:26:29: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:26:29: #1 total tags in treatment: 11603039 INFO @ Wed, 28 Jun 2017 05:26:29: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:26:29: #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 05:26:29: #1 tags after filtering in treatment: 8523909 INFO @ Wed, 28 Jun 2017 05:26:29: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 28 Jun 2017 05:26:29: #1 finished! INFO @ Wed, 28 Jun 2017 05:26:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:26:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:26:29: #1 tags after filtering in treatment: 8523909 INFO @ Wed, 28 Jun 2017 05:26:29: #1 Redundant rate of treatment: 0.27 INFO @ Wed, 28 Jun 2017 05:26:29: #1 finished! INFO @ Wed, 28 Jun 2017 05:26:29: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:26:29: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:26:30: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:26:30: 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 05:26:30: Process for pairing-model is terminated! cat: SRX1423683.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 05:26:30: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:26:30: 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 05:26:30: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1423683.05_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 `SRX1423683.05_*.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 `SRX1423683.05_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 cat: SRX1423683.10_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 `SRX1423683.10_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 `SRX1423683.10_*.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 `SRX1423683.10_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。