Job ID = 10608972 sra ファイルのダウンロード中... Completed: 2519563K bytes transferred in 289 seconds (71335K 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 19882316 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2741971/SRR5453805.sra Written 19882316 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: 00:00:01 Multiseed full-index search: 00:24:47 19882316 reads; of these: 19882316 (100.00%) were paired; of these: 2122579 (10.68%) aligned concordantly 0 times 15705036 (78.99%) aligned concordantly exactly 1 time 2054701 (10.33%) aligned concordantly >1 times ---- 2122579 pairs aligned concordantly 0 times; of these: 405377 (19.10%) aligned discordantly 1 time ---- 1717202 pairs aligned 0 times concordantly or discordantly; of these: 3434404 mates make up the pairs; of these: 2424734 (70.60%) aligned 0 times 762876 (22.21%) aligned exactly 1 time 246794 (7.19%) aligned >1 times 93.90% overall alignment rate Time searching: 00:24:48 Overall time: 00:24:48 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] 10269218 / 18112581 = 0.5670 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, 03 May 2018 23:35:24: # Command line: callpeak -t SRX2741971.bam -f BAM -g 12100000 -n SRX2741971.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2741971.10 # format = BAM # ChIP-seq file = ['SRX2741971.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, 03 May 2018 23:35:24: #1 read tag files... INFO @ Thu, 03 May 2018 23:35:24: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:35:24: # Command line: callpeak -t SRX2741971.bam -f BAM -g 12100000 -n SRX2741971.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2741971.05 # format = BAM # ChIP-seq file = ['SRX2741971.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, 03 May 2018 23:35:24: #1 read tag files... INFO @ Thu, 03 May 2018 23:35:24: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:35:24: # Command line: callpeak -t SRX2741971.bam -f BAM -g 12100000 -n SRX2741971.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2741971.20 # format = BAM # ChIP-seq file = ['SRX2741971.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, 03 May 2018 23:35:24: #1 read tag files... INFO @ Thu, 03 May 2018 23:35:24: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:35:31: 1000000 INFO @ Thu, 03 May 2018 23:35:31: 1000000 INFO @ Thu, 03 May 2018 23:35:31: 1000000 INFO @ Thu, 03 May 2018 23:35:39: 2000000 INFO @ Thu, 03 May 2018 23:35:39: 2000000 INFO @ Thu, 03 May 2018 23:35:40: 2000000 INFO @ Thu, 03 May 2018 23:35:47: 3000000 INFO @ Thu, 03 May 2018 23:35:47: 3000000 INFO @ Thu, 03 May 2018 23:35:49: 3000000 INFO @ Thu, 03 May 2018 23:35:56: 4000000 INFO @ Thu, 03 May 2018 23:35:56: 4000000 INFO @ Thu, 03 May 2018 23:35:57: 4000000 INFO @ Thu, 03 May 2018 23:36:04: 5000000 INFO @ Thu, 03 May 2018 23:36:04: 5000000 INFO @ Thu, 03 May 2018 23:36:06: 5000000 INFO @ Thu, 03 May 2018 23:36:12: 6000000 INFO @ Thu, 03 May 2018 23:36:12: 6000000 INFO @ Thu, 03 May 2018 23:36:15: 6000000 INFO @ Thu, 03 May 2018 23:36:20: 7000000 INFO @ Thu, 03 May 2018 23:36:20: 7000000 INFO @ Thu, 03 May 2018 23:36:24: 7000000 INFO @ Thu, 03 May 2018 23:36:28: 8000000 INFO @ Thu, 03 May 2018 23:36:28: 8000000 INFO @ Thu, 03 May 2018 23:36:33: 8000000 INFO @ Thu, 03 May 2018 23:36:37: 9000000 INFO @ Thu, 03 May 2018 23:36:37: 9000000 INFO @ Thu, 03 May 2018 23:36:41: 9000000 INFO @ Thu, 03 May 2018 23:36:45: 10000000 INFO @ Thu, 03 May 2018 23:36:45: 10000000 INFO @ Thu, 03 May 2018 23:36:50: 10000000 INFO @ Thu, 03 May 2018 23:36:53: 11000000 INFO @ Thu, 03 May 2018 23:36:53: 11000000 INFO @ Thu, 03 May 2018 23:36:59: 11000000 INFO @ Thu, 03 May 2018 23:37:01: 12000000 INFO @ Thu, 03 May 2018 23:37:01: 12000000 INFO @ Thu, 03 May 2018 23:37:07: 12000000 INFO @ Thu, 03 May 2018 23:37:09: 13000000 INFO @ Thu, 03 May 2018 23:37:09: 13000000 INFO @ Thu, 03 May 2018 23:37:16: 13000000 INFO @ Thu, 03 May 2018 23:37:17: 14000000 INFO @ Thu, 03 May 2018 23:37:18: 14000000 INFO @ Thu, 03 May 2018 23:37:25: 14000000 INFO @ Thu, 03 May 2018 23:37:26: 15000000 INFO @ Thu, 03 May 2018 23:37:26: 15000000 INFO @ Thu, 03 May 2018 23:37:34: 16000000 INFO @ Thu, 03 May 2018 23:37:34: 16000000 INFO @ Thu, 03 May 2018 23:37:34: 15000000 INFO @ Thu, 03 May 2018 23:37:40: #1 tag size is determined as 100 bps INFO @ Thu, 03 May 2018 23:37:40: #1 tag size = 100 INFO @ Thu, 03 May 2018 23:37:40: #1 total tags in treatment: 7545950 INFO @ Thu, 03 May 2018 23:37:40: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:37:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:37:41: #1 tag size is determined as 100 bps INFO @ Thu, 03 May 2018 23:37:41: #1 tag size = 100 INFO @ Thu, 03 May 2018 23:37:41: #1 total tags in treatment: 7545950 INFO @ Thu, 03 May 2018 23:37:41: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:37:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:37:41: #1 tags after filtering in treatment: 5667828 INFO @ Thu, 03 May 2018 23:37:41: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 03 May 2018 23:37:41: #1 finished! INFO @ Thu, 03 May 2018 23:37:41: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:37:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:37:41: #1 tags after filtering in treatment: 5667828 INFO @ Thu, 03 May 2018 23:37:41: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 03 May 2018 23:37:41: #1 finished! INFO @ Thu, 03 May 2018 23:37:41: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:37:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:37:41: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:37:41: 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, 03 May 2018 23:37:41: Process for pairing-model is terminated! cat: SRX2741971.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2741971.20_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 `SRX2741971.20_*.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 `SRX2741971.20_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 @ Thu, 03 May 2018 23:37:41: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:37:41: 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, 03 May 2018 23:37:41: Process for pairing-model is terminated! cat: SRX2741971.05_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 `SRX2741971.05_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 `SRX2741971.05_*.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 `SRX2741971.05_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, 03 May 2018 23:37:42: 16000000 INFO @ Thu, 03 May 2018 23:37:48: #1 tag size is determined as 100 bps INFO @ Thu, 03 May 2018 23:37:48: #1 tag size = 100 INFO @ Thu, 03 May 2018 23:37:48: #1 total tags in treatment: 7545950 INFO @ Thu, 03 May 2018 23:37:48: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:37:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:37:48: #1 tags after filtering in treatment: 5667828 INFO @ Thu, 03 May 2018 23:37:48: #1 Redundant rate of treatment: 0.25 INFO @ Thu, 03 May 2018 23:37:48: #1 finished! INFO @ Thu, 03 May 2018 23:37:48: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:37:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:37:49: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:37:49: 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, 03 May 2018 23:37:49: Process for pairing-model is terminated! cat: SRX2741971.10_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 `SRX2741971.10_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 `SRX2741971.10_*.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 `SRX2741971.10_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。