Job ID = 11634721 sra ファイルのダウンロード中... Completed: 717842K bytes transferred in 10 seconds (554817K 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 39209270 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4957456/SRR8136470.sra Written 39209270 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4957456/SRR8136470.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: 00:07:06 39209270 reads; of these: 39209270 (100.00%) were unpaired; of these: 2252518 (5.74%) aligned 0 times 33206381 (84.69%) aligned exactly 1 time 3750371 (9.57%) aligned >1 times 94.26% overall alignment rate Time searching: 00:07:06 Overall time: 00:07:06 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] 23745249 / 36956752 = 0.6425 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 10:57:00: # Command line: callpeak -t SRX4957456.bam -f BAM -g 12100000 -n SRX4957456.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4957456.10 # format = BAM # ChIP-seq file = ['SRX4957456.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 10:57:00: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:57:00: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:57:00: # Command line: callpeak -t SRX4957456.bam -f BAM -g 12100000 -n SRX4957456.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4957456.05 # format = BAM # ChIP-seq file = ['SRX4957456.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 10:57:00: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:57:00: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:57:00: # Command line: callpeak -t SRX4957456.bam -f BAM -g 12100000 -n SRX4957456.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4957456.20 # format = BAM # ChIP-seq file = ['SRX4957456.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 10:57:00: #1 read tag files... INFO @ Fri, 15 Feb 2019 10:57:00: #1 read treatment tags... INFO @ Fri, 15 Feb 2019 10:57:07: 1000000 INFO @ Fri, 15 Feb 2019 10:57:07: 1000000 INFO @ Fri, 15 Feb 2019 10:57:07: 1000000 INFO @ Fri, 15 Feb 2019 10:57:13: 2000000 INFO @ Fri, 15 Feb 2019 10:57:13: 2000000 INFO @ Fri, 15 Feb 2019 10:57:13: 2000000 INFO @ Fri, 15 Feb 2019 10:57:19: 3000000 INFO @ Fri, 15 Feb 2019 10:57:19: 3000000 INFO @ Fri, 15 Feb 2019 10:57:20: 3000000 INFO @ Fri, 15 Feb 2019 10:57:25: 4000000 INFO @ Fri, 15 Feb 2019 10:57:26: 4000000 INFO @ Fri, 15 Feb 2019 10:57:27: 4000000 INFO @ Fri, 15 Feb 2019 10:57:31: 5000000 INFO @ Fri, 15 Feb 2019 10:57:32: 5000000 INFO @ Fri, 15 Feb 2019 10:57:33: 5000000 INFO @ Fri, 15 Feb 2019 10:57:38: 6000000 INFO @ Fri, 15 Feb 2019 10:57:39: 6000000 INFO @ Fri, 15 Feb 2019 10:57:40: 6000000 INFO @ Fri, 15 Feb 2019 10:57:44: 7000000 INFO @ Fri, 15 Feb 2019 10:57:45: 7000000 INFO @ Fri, 15 Feb 2019 10:57:47: 7000000 INFO @ Fri, 15 Feb 2019 10:57:50: 8000000 INFO @ Fri, 15 Feb 2019 10:57:52: 8000000 INFO @ Fri, 15 Feb 2019 10:57:53: 8000000 INFO @ Fri, 15 Feb 2019 10:57:56: 9000000 INFO @ Fri, 15 Feb 2019 10:57:58: 9000000 INFO @ Fri, 15 Feb 2019 10:58:00: 9000000 INFO @ Fri, 15 Feb 2019 10:58:02: 10000000 INFO @ Fri, 15 Feb 2019 10:58:04: 10000000 INFO @ Fri, 15 Feb 2019 10:58:07: 10000000 INFO @ Fri, 15 Feb 2019 10:58:08: 11000000 INFO @ Fri, 15 Feb 2019 10:58:11: 11000000 INFO @ Fri, 15 Feb 2019 10:58:13: 11000000 INFO @ Fri, 15 Feb 2019 10:58:14: 12000000 INFO @ Fri, 15 Feb 2019 10:58:17: 12000000 INFO @ Fri, 15 Feb 2019 10:58:20: 13000000 INFO @ Fri, 15 Feb 2019 10:58:20: 12000000 INFO @ Fri, 15 Feb 2019 10:58:21: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:58:21: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:58:21: #1 total tags in treatment: 13211503 INFO @ Fri, 15 Feb 2019 10:58:21: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:58:21: #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 10:58:22: #1 tags after filtering in treatment: 13211503 INFO @ Fri, 15 Feb 2019 10:58:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:58:22: #1 finished! INFO @ Fri, 15 Feb 2019 10:58:22: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:58:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:58:23: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:58:23: 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 10:58:23: Process for pairing-model is terminated! cat: SRX4957456.10_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4957456.10_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 `SRX4957456.10_*.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 `SRX4957456.10_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 10:58:24: 13000000 INFO @ Fri, 15 Feb 2019 10:58:25: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:58:25: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:58:25: #1 total tags in treatment: 13211503 INFO @ Fri, 15 Feb 2019 10:58:25: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:58:25: #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 10:58:25: #1 tags after filtering in treatment: 13211503 INFO @ Fri, 15 Feb 2019 10:58:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:58:25: #1 finished! INFO @ Fri, 15 Feb 2019 10:58:25: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:58:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:58:26: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:58:26: 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 @ Fri, 15 Feb 2019 10:58:26: Process for pairing-model is terminated! cat: SRX4957456.05_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4957456.05_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 `SRX4957456.05_*.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 `SRX4957456.05_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 @ Fri, 15 Feb 2019 10:58:27: 13000000 INFO @ Fri, 15 Feb 2019 10:58:28: #1 tag size is determined as 50 bps INFO @ Fri, 15 Feb 2019 10:58:28: #1 tag size = 50 INFO @ Fri, 15 Feb 2019 10:58:28: #1 total tags in treatment: 13211503 INFO @ Fri, 15 Feb 2019 10:58:28: #1 user defined the maximum tags... INFO @ Fri, 15 Feb 2019 10:58:28: #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 10:58:28: #1 tags after filtering in treatment: 13211503 INFO @ Fri, 15 Feb 2019 10:58:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 15 Feb 2019 10:58:28: #1 finished! INFO @ Fri, 15 Feb 2019 10:58:28: #2 Build Peak Model... INFO @ Fri, 15 Feb 2019 10:58:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 15 Feb 2019 10:58:29: #2 number of paired peaks: 0 WARNING @ Fri, 15 Feb 2019 10:58:29: 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 10:58:29: Process for pairing-model is terminated! cat: SRX4957456.20_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): 4 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4957456.20_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 `SRX4957456.20_*.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 `SRX4957456.20_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。