Job ID = 11634720 sra ファイルのダウンロード中... Completed: 677855K bytes transferred in 11 seconds (498883K 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: SINGLE fastq に変換中... Read 36958326 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4957455/SRR8136469.sra Written 36958326 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4957455/SRR8136469.sra 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: 00:06:45 36958326 reads; of these: 36958326 (100.00%) were unpaired; of these: 1976671 (5.35%) aligned 0 times 31454671 (85.11%) aligned exactly 1 time 3526984 (9.54%) aligned >1 times 94.65% overall alignment rate Time searching: 00:06:45 Overall time: 00:06:45 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_rmdupse_core] 21808144 / 34981655 = 0.6234 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 @ Fri, 15 Feb 2019 10:56:00: # Command line: callpeak -t SRX4957455.bam -f BAM -g 12100000 -n SRX4957455.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4957455.20 # format = BAM # ChIP-seq file = ['SRX4957455.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 @ Fri, 15 Feb 2019 10:56:00: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:56:00: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:56:00: # Command line: callpeak -t SRX4957455.bam -f BAM -g 12100000 -n SRX4957455.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4957455.05 # format = BAM # ChIP-seq file = ['SRX4957455.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 @ Fri, 15 Feb 2019 10:56:00: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:56:00: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:56:00: # Command line: callpeak -t SRX4957455.bam -f BAM -g 12100000 -n SRX4957455.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4957455.10 # format = BAM # ChIP-seq file = ['SRX4957455.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 @ Fri, 15 Feb 2019 10:56:00: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:56:00: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:56:06: 1000000 INFO @ Fri, 15 Feb 2019 10:56:07: 1000000 INFO @ Fri, 15 Feb 2019 10:56:07: 1000000 INFO @ Fri, 15 Feb 2019 10:56:12: 2000000 INFO @ Fri, 15 Feb 2019 10:56:12: 2000000 INFO @ Fri, 15 Feb 2019 10:56:13: 2000000 INFO @ Fri, 15 Feb 2019 10:56:18: 3000000 INFO @ Fri, 15 Feb 2019 10:56:18: 3000000 INFO @ Fri, 15 Feb 2019 10:56:19: 3000000 INFO @ Fri, 15 Feb 2019 10:56:24: 4000000 INFO @ Fri, 15 Feb 2019 10:56:24: 4000000 INFO @ Fri, 15 Feb 2019 10:56:25: 4000000 INFO @ Fri, 15 Feb 2019 10:56:29: 5000000 INFO @ Fri, 15 Feb 2019 10:56:30: 5000000 INFO @ Fri, 15 Feb 2019 10:56:31: 5000000 INFO @ Fri, 15 Feb 2019 10:56:35: 6000000 INFO @ Fri, 15 Feb 2019 10:56:36: 6000000 INFO @ Fri, 15 Feb 2019 10:56:37: 6000000 INFO @ Fri, 15 Feb 2019 10:56:41: 7000000 INFO @ Fri, 15 Feb 2019 10:56:42: 7000000 INFO @ Fri, 15 Feb 2019 10:56:43: 7000000 INFO @ Fri, 15 Feb 2019 10:56:47: 8000000 INFO @ Fri, 15 Feb 2019 10:56:48: 8000000 INFO @ Fri, 15 Feb 2019 10:56:50: 8000000 INFO @ Fri, 15 Feb 2019 10:56:53: 9000000 INFO @ Fri, 15 Feb 2019 10:56:54: 9000000 INFO @ Fri, 15 Feb 2019 10:56:56: 9000000 INFO @ Fri, 15 Feb 2019 10:56:59: 10000000 INFO @ Fri, 15 Feb 2019 10:57:00: 10000000 INFO @ Fri, 15 Feb 2019 10:57:02: 10000000 INFO @ Fri, 15 Feb 2019 10:57:05: 11000000 INFO @ Fri, 15 Feb 2019 10:57:06: 11000000 INFO @ Fri, 15 Feb 2019 10:57:08: 11000000 INFO @ Fri, 15 Feb 2019 10:57:11: 12000000 INFO @ Fri, 15 Feb 2019 10:57:12: 12000000 INFO @ Fri, 15 Feb 2019 10:57:15: 12000000 INFO @ Fri, 15 Feb 2019 10:57:17: 13000000 INFO @ Fri, 15 Feb 2019 10:57:18: 13000000 INFO @ Fri, 15 Feb 2019 10:57:18: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:57:18: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:57:18: #1 total tags in treatment: 13173511 INFO @ Fri, 15 Feb 2019 10:57:18: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:57:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:57:18: #1 tags after filtering in treatment: 13173511 INFO @ Fri, 15 Feb 2019 10:57:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:57:18: #1 finished! INFO @ Fri, 15 Feb 2019 10:57:18: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:57:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:57:19: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:57:19: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:57:19: #1 total tags in treatment: 13173511 INFO @ Fri, 15 Feb 2019 10:57:19: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:57:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:57:19: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:57:19: 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 @ Fri, 15 Feb 2019 10:57:19: Process for pairing-model is terminated! cat: SRX4957455.20_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 `SRX4957455.20_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 `SRX4957455.20_*.xls': そのようなファイルやディレクトリはありません INFO @ Fri, 15 Feb 2019 10:57:19: #1 tags after filtering in treatment: 13173511 INFO @ Fri, 15 Feb 2019 10:57:19: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:57:19: #1 finished! INFO @ Fri, 15 Feb 2019 10:57:19: #2 Build Peak Model... rm: cannot remove `SRX4957455.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません INFO @ Fri, 15 Feb 2019 10:57:19: #2 looking for paired plus/minus strand peaks... CompletedMACS2peakCalling INFO @ Fri, 15 Feb 2019 10:57:20: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:57:20: 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 @ Fri, 15 Feb 2019 10:57:20: Process for pairing-model is terminated! cat: SRX4957455.10_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 `SRX4957455.10_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 `SRX4957455.10_*.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 `SRX4957455.10_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 @ Fri, 15 Feb 2019 10:57:21: 13000000 INFO @ Fri, 15 Feb 2019 10:57:22: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:57:22: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:57:22: #1 total tags in treatment: 13173511 INFO @ Fri, 15 Feb 2019 10:57:22: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:57:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 15 Feb 2019 10:57:22: #1 tags after filtering in treatment: 13173511 INFO @ Fri, 15 Feb 2019 10:57:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:57:22: #1 finished! INFO @ Fri, 15 Feb 2019 10:57:22: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:57:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:57:23: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:57:23: 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 @ Fri, 15 Feb 2019 10:57:23: Process for pairing-model is terminated! cat: SRX4957455.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4957455.05_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 `SRX4957455.05_*.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 `SRX4957455.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。