Job ID = 10536511 sra ファイルのダウンロード中... Completed: 1120562K bytes transferred in 30 seconds (297353K bits/sec), in 1 file. 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 28600471 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671205/SRR6696957.sra Written 28600471 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:19:52 28600471 reads; of these: 28600471 (100.00%) were paired; of these: 3732831 (13.05%) aligned concordantly 0 times 20008939 (69.96%) aligned concordantly exactly 1 time 4858701 (16.99%) aligned concordantly >1 times ---- 3732831 pairs aligned concordantly 0 times; of these: 149091 (3.99%) aligned discordantly 1 time ---- 3583740 pairs aligned 0 times concordantly or discordantly; of these: 7167480 mates make up the pairs; of these: 6903634 (96.32%) aligned 0 times 103269 (1.44%) aligned exactly 1 time 160577 (2.24%) aligned >1 times 87.93% overall alignment rate Time searching: 00:19:52 Overall time: 00:19:52 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 24 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] 7210860 / 24962333 = 0.2889 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 @ Thu, 05 Apr 2018 10:30:01: # Command line: callpeak -t SRX3671205.bam -f BAM -g 12100000 -n SRX3671205.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671205.10 # format = BAM # ChIP-seq file = ['SRX3671205.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 @ Thu, 05 Apr 2018 10:30:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:30:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:30:01: # Command line: callpeak -t SRX3671205.bam -f BAM -g 12100000 -n SRX3671205.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671205.20 # format = BAM # ChIP-seq file = ['SRX3671205.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 @ Thu, 05 Apr 2018 10:30:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:30:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:30:01: # Command line: callpeak -t SRX3671205.bam -f BAM -g 12100000 -n SRX3671205.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671205.05 # format = BAM # ChIP-seq file = ['SRX3671205.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 @ Thu, 05 Apr 2018 10:30:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:30:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:30:07: 1000000 INFO @ Thu, 05 Apr 2018 10:30:07: 1000000 INFO @ Thu, 05 Apr 2018 10:30:07: 1000000 INFO @ Thu, 05 Apr 2018 10:30:12: 2000000 INFO @ Thu, 05 Apr 2018 10:30:13: 2000000 INFO @ Thu, 05 Apr 2018 10:30:13: 2000000 INFO @ Thu, 05 Apr 2018 10:30:18: 3000000 INFO @ Thu, 05 Apr 2018 10:30:18: 3000000 INFO @ Thu, 05 Apr 2018 10:30:18: 3000000 INFO @ Thu, 05 Apr 2018 10:30:24: 4000000 INFO @ Thu, 05 Apr 2018 10:30:24: 4000000 INFO @ Thu, 05 Apr 2018 10:30:24: 4000000 INFO @ Thu, 05 Apr 2018 10:30:30: 5000000 INFO @ Thu, 05 Apr 2018 10:30:30: 5000000 INFO @ Thu, 05 Apr 2018 10:30:30: 5000000 INFO @ Thu, 05 Apr 2018 10:30:35: 6000000 INFO @ Thu, 05 Apr 2018 10:30:36: 6000000 INFO @ Thu, 05 Apr 2018 10:30:36: 6000000 INFO @ Thu, 05 Apr 2018 10:30:41: 7000000 INFO @ Thu, 05 Apr 2018 10:30:42: 7000000 INFO @ Thu, 05 Apr 2018 10:30:42: 7000000 INFO @ Thu, 05 Apr 2018 10:30:47: 8000000 INFO @ Thu, 05 Apr 2018 10:30:48: 8000000 INFO @ Thu, 05 Apr 2018 10:30:48: 8000000 INFO @ Thu, 05 Apr 2018 10:30:53: 9000000 INFO @ Thu, 05 Apr 2018 10:30:53: 9000000 INFO @ Thu, 05 Apr 2018 10:30:53: 9000000 INFO @ Thu, 05 Apr 2018 10:30:58: 10000000 INFO @ Thu, 05 Apr 2018 10:30:59: 10000000 INFO @ Thu, 05 Apr 2018 10:30:59: 10000000 INFO @ Thu, 05 Apr 2018 10:31:04: 11000000 INFO @ Thu, 05 Apr 2018 10:31:05: 11000000 INFO @ Thu, 05 Apr 2018 10:31:05: 11000000 INFO @ Thu, 05 Apr 2018 10:31:10: 12000000 INFO @ Thu, 05 Apr 2018 10:31:11: 12000000 INFO @ Thu, 05 Apr 2018 10:31:11: 12000000 INFO @ Thu, 05 Apr 2018 10:31:15: 13000000 INFO @ Thu, 05 Apr 2018 10:31:16: 13000000 INFO @ Thu, 05 Apr 2018 10:31:17: 13000000 INFO @ Thu, 05 Apr 2018 10:31:21: 14000000 INFO @ Thu, 05 Apr 2018 10:31:22: 14000000 INFO @ Thu, 05 Apr 2018 10:31:22: 14000000 INFO @ Thu, 05 Apr 2018 10:31:27: 15000000 INFO @ Thu, 05 Apr 2018 10:31:28: 15000000 INFO @ Thu, 05 Apr 2018 10:31:28: 15000000 INFO @ Thu, 05 Apr 2018 10:31:32: 16000000 INFO @ Thu, 05 Apr 2018 10:31:34: 16000000 INFO @ Thu, 05 Apr 2018 10:31:34: 16000000 INFO @ Thu, 05 Apr 2018 10:31:38: 17000000 INFO @ Thu, 05 Apr 2018 10:31:40: 17000000 INFO @ Thu, 05 Apr 2018 10:31:40: 17000000 INFO @ Thu, 05 Apr 2018 10:31:44: 18000000 INFO @ Thu, 05 Apr 2018 10:31:46: 18000000 INFO @ Thu, 05 Apr 2018 10:31:46: 18000000 INFO @ Thu, 05 Apr 2018 10:31:49: 19000000 INFO @ Thu, 05 Apr 2018 10:31:51: 19000000 INFO @ Thu, 05 Apr 2018 10:31:51: 19000000 INFO @ Thu, 05 Apr 2018 10:31:55: 20000000 INFO @ Thu, 05 Apr 2018 10:31:57: 20000000 INFO @ Thu, 05 Apr 2018 10:31:57: 20000000 INFO @ Thu, 05 Apr 2018 10:32:01: 21000000 INFO @ Thu, 05 Apr 2018 10:32:03: 21000000 INFO @ Thu, 05 Apr 2018 10:32:03: 21000000 INFO @ Thu, 05 Apr 2018 10:32:06: 22000000 INFO @ Thu, 05 Apr 2018 10:32:09: 22000000 INFO @ Thu, 05 Apr 2018 10:32:09: 22000000 INFO @ Thu, 05 Apr 2018 10:32:12: 23000000 INFO @ Thu, 05 Apr 2018 10:32:14: 23000000 INFO @ Thu, 05 Apr 2018 10:32:14: 23000000 INFO @ Thu, 05 Apr 2018 10:32:17: 24000000 INFO @ Thu, 05 Apr 2018 10:32:20: 24000000 INFO @ Thu, 05 Apr 2018 10:32:20: 24000000 INFO @ Thu, 05 Apr 2018 10:32:23: 25000000 INFO @ Thu, 05 Apr 2018 10:32:26: 25000000 INFO @ Thu, 05 Apr 2018 10:32:26: 25000000 INFO @ Thu, 05 Apr 2018 10:32:29: 26000000 INFO @ Thu, 05 Apr 2018 10:32:32: 26000000 INFO @ Thu, 05 Apr 2018 10:32:32: 26000000 INFO @ Thu, 05 Apr 2018 10:32:34: 27000000 INFO @ Thu, 05 Apr 2018 10:32:38: 27000000 INFO @ Thu, 05 Apr 2018 10:32:38: 27000000 INFO @ Thu, 05 Apr 2018 10:32:40: 28000000 INFO @ Thu, 05 Apr 2018 10:32:43: 28000000 INFO @ Thu, 05 Apr 2018 10:32:44: 28000000 INFO @ Thu, 05 Apr 2018 10:32:46: 29000000 INFO @ Thu, 05 Apr 2018 10:32:49: 29000000 INFO @ Thu, 05 Apr 2018 10:32:49: 29000000 INFO @ Thu, 05 Apr 2018 10:32:51: 30000000 INFO @ Thu, 05 Apr 2018 10:32:55: 30000000 INFO @ Thu, 05 Apr 2018 10:32:55: 30000000 INFO @ Thu, 05 Apr 2018 10:32:57: 31000000 INFO @ Thu, 05 Apr 2018 10:33:01: 31000000 INFO @ Thu, 05 Apr 2018 10:33:01: 31000000 INFO @ Thu, 05 Apr 2018 10:33:03: 32000000 INFO @ Thu, 05 Apr 2018 10:33:07: 32000000 INFO @ Thu, 05 Apr 2018 10:33:07: 32000000 INFO @ Thu, 05 Apr 2018 10:33:08: 33000000 INFO @ Thu, 05 Apr 2018 10:33:12: 33000000 INFO @ Thu, 05 Apr 2018 10:33:13: 33000000 INFO @ Thu, 05 Apr 2018 10:33:14: 34000000 INFO @ Thu, 05 Apr 2018 10:33:18: 34000000 INFO @ Thu, 05 Apr 2018 10:33:18: 34000000 INFO @ Thu, 05 Apr 2018 10:33:20: 35000000 INFO @ Thu, 05 Apr 2018 10:33:24: 35000000 INFO @ Thu, 05 Apr 2018 10:33:24: 35000000 INFO @ Thu, 05 Apr 2018 10:33:25: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:33:25: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:33:25: #1 total tags in treatment: 17688880 INFO @ Thu, 05 Apr 2018 10:33:25: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:33:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:33:25: #1 tags after filtering in treatment: 6900208 INFO @ Thu, 05 Apr 2018 10:33:25: #1 Redundant rate of treatment: 0.61 INFO @ Thu, 05 Apr 2018 10:33:25: #1 finished! INFO @ Thu, 05 Apr 2018 10:33:25: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:33:25: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:33:26: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:33:26: 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 @ Thu, 05 Apr 2018 10:33:26: Process for pairing-model is terminated! cat: SRX3671205.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671205.05_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 `SRX3671205.05_*.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 `SRX3671205.05_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 @ Thu, 05 Apr 2018 10:33:29: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:33:29: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:33:29: #1 total tags in treatment: 17688880 INFO @ Thu, 05 Apr 2018 10:33:29: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:33:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:33:29: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:33:29: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:33:29: #1 total tags in treatment: 17688880 INFO @ Thu, 05 Apr 2018 10:33:29: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:33:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:33:30: #1 tags after filtering in treatment: 6900208 INFO @ Thu, 05 Apr 2018 10:33:30: #1 Redundant rate of treatment: 0.61 INFO @ Thu, 05 Apr 2018 10:33:30: #1 finished! INFO @ Thu, 05 Apr 2018 10:33:30: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:33:30: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:33:30: #1 tags after filtering in treatment: 6900208 INFO @ Thu, 05 Apr 2018 10:33:30: #1 Redundant rate of treatment: 0.61 INFO @ Thu, 05 Apr 2018 10:33:30: #1 finished! INFO @ Thu, 05 Apr 2018 10:33:30: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:33:30: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:33:30: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:33:30: 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 @ Thu, 05 Apr 2018 10:33:30: Process for pairing-model is terminated! cat: SRX3671205.10_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 `SRX3671205.10_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 `SRX3671205.10_*.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 `SRX3671205.10_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 @ Thu, 05 Apr 2018 10:33:30: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:33:30: 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 @ Thu, 05 Apr 2018 10:33:30: Process for pairing-model is terminated! cat: SRX3671205.20_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 `SRX3671205.20_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 `SRX3671205.20_*.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 `SRX3671205.20_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。