Job ID = 11192982 sra ファイルのダウンロード中... Completed: 421517K bytes transferred in 41 seconds (83849K 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 21018325 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233647/SRR7360902.sra Written 21018325 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4233647/SRR7360902.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: 00:03:27 21018325 reads; of these: 21018325 (100.00%) were unpaired; of these: 1232366 (5.86%) aligned 0 times 18174590 (86.47%) aligned exactly 1 time 1611369 (7.67%) aligned >1 times 94.14% overall alignment rate Time searching: 00:03:27 Overall time: 00:03:27 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_rmdupse_core] 7966017 / 19785959 = 0.4026 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 @ Sat, 15 Sep 2018 10:52:04: # Command line: callpeak -t SRX4233647.bam -f BAM -g 12100000 -n SRX4233647.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4233647.10 # format = BAM # ChIP-seq file = ['SRX4233647.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 @ Sat, 15 Sep 2018 10:52:04: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:52:04: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:52:04: # Command line: callpeak -t SRX4233647.bam -f BAM -g 12100000 -n SRX4233647.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4233647.20 # format = BAM # ChIP-seq file = ['SRX4233647.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 @ Sat, 15 Sep 2018 10:52:04: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:52:04: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:52:04: # Command line: callpeak -t SRX4233647.bam -f BAM -g 12100000 -n SRX4233647.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4233647.05 # format = BAM # ChIP-seq file = ['SRX4233647.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 @ Sat, 15 Sep 2018 10:52:04: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:52:04: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:52:10: 1000000 INFO @ Sat, 15 Sep 2018 10:52:10: 1000000 INFO @ Sat, 15 Sep 2018 10:52:10: 1000000 INFO @ Sat, 15 Sep 2018 10:52:16: 2000000 INFO @ Sat, 15 Sep 2018 10:52:16: 2000000 INFO @ Sat, 15 Sep 2018 10:52:16: 2000000 INFO @ Sat, 15 Sep 2018 10:52:22: 3000000 INFO @ Sat, 15 Sep 2018 10:52:22: 3000000 INFO @ Sat, 15 Sep 2018 10:52:22: 3000000 INFO @ Sat, 15 Sep 2018 10:52:28: 4000000 INFO @ Sat, 15 Sep 2018 10:52:28: 4000000 INFO @ Sat, 15 Sep 2018 10:52:28: 4000000 INFO @ Sat, 15 Sep 2018 10:52:34: 5000000 INFO @ Sat, 15 Sep 2018 10:52:34: 5000000 INFO @ Sat, 15 Sep 2018 10:52:35: 5000000 INFO @ Sat, 15 Sep 2018 10:52:39: 6000000 INFO @ Sat, 15 Sep 2018 10:52:40: 6000000 INFO @ Sat, 15 Sep 2018 10:52:41: 6000000 INFO @ Sat, 15 Sep 2018 10:52:46: 7000000 INFO @ Sat, 15 Sep 2018 10:52:46: 7000000 INFO @ Sat, 15 Sep 2018 10:52:47: 7000000 INFO @ Sat, 15 Sep 2018 10:52:52: 8000000 INFO @ Sat, 15 Sep 2018 10:52:53: 8000000 INFO @ Sat, 15 Sep 2018 10:52:54: 8000000 INFO @ Sat, 15 Sep 2018 10:52:58: 9000000 INFO @ Sat, 15 Sep 2018 10:52:59: 9000000 INFO @ Sat, 15 Sep 2018 10:53:00: 9000000 INFO @ Sat, 15 Sep 2018 10:53:04: 10000000 INFO @ Sat, 15 Sep 2018 10:53:05: 10000000 INFO @ Sat, 15 Sep 2018 10:53:06: 10000000 INFO @ Sat, 15 Sep 2018 10:53:10: 11000000 INFO @ Sat, 15 Sep 2018 10:53:11: 11000000 INFO @ Sat, 15 Sep 2018 10:53:13: 11000000 INFO @ Sat, 15 Sep 2018 10:53:15: #1 tag size is determined as 48 bps INFO @ Sat, 15 Sep 2018 10:53:15: #1 tag size = 48 INFO @ Sat, 15 Sep 2018 10:53:15: #1 total tags in treatment: 11819942 INFO @ Sat, 15 Sep 2018 10:53:15: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:53:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:53:16: #1 tags after filtering in treatment: 11819942 INFO @ Sat, 15 Sep 2018 10:53:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:53:16: #1 finished! INFO @ Sat, 15 Sep 2018 10:53:16: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:53:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:53:16: #1 tag size is determined as 48 bps INFO @ Sat, 15 Sep 2018 10:53:16: #1 tag size = 48 INFO @ Sat, 15 Sep 2018 10:53:16: #1 total tags in treatment: 11819942 INFO @ Sat, 15 Sep 2018 10:53:16: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:53:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:53:16: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:53:16: 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 @ Sat, 15 Sep 2018 10:53:16: Process for pairing-model is terminated! cat: SRX4233647.20_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 `SRX4233647.20_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 `SRX4233647.20_*.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 `SRX4233647.20_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 @ Sat, 15 Sep 2018 10:53:17: #1 tags after filtering in treatment: 11819942 INFO @ Sat, 15 Sep 2018 10:53:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:53:17: #1 finished! INFO @ Sat, 15 Sep 2018 10:53:17: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:53:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:53:17: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:53:17: 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 @ Sat, 15 Sep 2018 10:53:17: Process for pairing-model is terminated! cat: SRX4233647.05_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 `SRX4233647.05_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 `SRX4233647.05_*.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 `SRX4233647.05_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 @ Sat, 15 Sep 2018 10:53:18: #1 tag size is determined as 48 bps INFO @ Sat, 15 Sep 2018 10:53:18: #1 tag size = 48 INFO @ Sat, 15 Sep 2018 10:53:18: #1 total tags in treatment: 11819942 INFO @ Sat, 15 Sep 2018 10:53:18: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:53:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:53:18: #1 tags after filtering in treatment: 11819942 INFO @ Sat, 15 Sep 2018 10:53:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Sep 2018 10:53:18: #1 finished! INFO @ Sat, 15 Sep 2018 10:53:18: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:53:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:53:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:53:19: 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 @ Sat, 15 Sep 2018 10:53:19: Process for pairing-model is terminated! cat: SRX4233647.10_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 `SRX4233647.10_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 `SRX4233647.10_*.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 `SRX4233647.10_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。