Job ID = 11244877 sra ファイルのダウンロード中... Completed: 703418K bytes transferred in 8 seconds (679691K 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 38726544 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003428/SRR7072980.sra Written 38726544 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4003428/SRR7072980.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: 00:06:05 38726544 reads; of these: 38726544 (100.00%) were unpaired; of these: 1544134 (3.99%) aligned 0 times 27742773 (71.64%) aligned exactly 1 time 9439637 (24.38%) aligned >1 times 96.01% overall alignment rate Time searching: 00:06:05 Overall time: 00:06:06 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] 21623603 / 37182410 = 0.5816 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 @ Tue, 09 Oct 2018 22:42:03: # Command line: callpeak -t SRX4003428.bam -f BAM -g 12100000 -n SRX4003428.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4003428.10 # format = BAM # ChIP-seq file = ['SRX4003428.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 @ Tue, 09 Oct 2018 22:42:03: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:42:03: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:42:03: # Command line: callpeak -t SRX4003428.bam -f BAM -g 12100000 -n SRX4003428.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4003428.05 # format = BAM # ChIP-seq file = ['SRX4003428.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 @ Tue, 09 Oct 2018 22:42:03: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:42:03: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:42:03: # Command line: callpeak -t SRX4003428.bam -f BAM -g 12100000 -n SRX4003428.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4003428.20 # format = BAM # ChIP-seq file = ['SRX4003428.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 @ Tue, 09 Oct 2018 22:42:03: #1 read tag files... INFO @ Tue, 09 Oct 2018 22:42:03: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 22:42:09: 1000000 INFO @ Tue, 09 Oct 2018 22:42:09: 1000000 INFO @ Tue, 09 Oct 2018 22:42:09: 1000000 INFO @ Tue, 09 Oct 2018 22:42:15: 2000000 INFO @ Tue, 09 Oct 2018 22:42:15: 2000000 INFO @ Tue, 09 Oct 2018 22:42:15: 2000000 INFO @ Tue, 09 Oct 2018 22:42:21: 3000000 INFO @ Tue, 09 Oct 2018 22:42:21: 3000000 INFO @ Tue, 09 Oct 2018 22:42:21: 3000000 INFO @ Tue, 09 Oct 2018 22:42:27: 4000000 INFO @ Tue, 09 Oct 2018 22:42:27: 4000000 INFO @ Tue, 09 Oct 2018 22:42:27: 4000000 INFO @ Tue, 09 Oct 2018 22:42:33: 5000000 INFO @ Tue, 09 Oct 2018 22:42:33: 5000000 INFO @ Tue, 09 Oct 2018 22:42:33: 5000000 INFO @ Tue, 09 Oct 2018 22:42:39: 6000000 INFO @ Tue, 09 Oct 2018 22:42:39: 6000000 INFO @ Tue, 09 Oct 2018 22:42:39: 6000000 INFO @ Tue, 09 Oct 2018 22:42:45: 7000000 INFO @ Tue, 09 Oct 2018 22:42:45: 7000000 INFO @ Tue, 09 Oct 2018 22:42:45: 7000000 INFO @ Tue, 09 Oct 2018 22:42:51: 8000000 INFO @ Tue, 09 Oct 2018 22:42:51: 8000000 INFO @ Tue, 09 Oct 2018 22:42:51: 8000000 INFO @ Tue, 09 Oct 2018 22:42:57: 9000000 INFO @ Tue, 09 Oct 2018 22:42:57: 9000000 INFO @ Tue, 09 Oct 2018 22:42:57: 9000000 INFO @ Tue, 09 Oct 2018 22:43:03: 10000000 INFO @ Tue, 09 Oct 2018 22:43:03: 10000000 INFO @ Tue, 09 Oct 2018 22:43:03: 10000000 INFO @ Tue, 09 Oct 2018 22:43:09: 11000000 INFO @ Tue, 09 Oct 2018 22:43:09: 11000000 INFO @ Tue, 09 Oct 2018 22:43:09: 11000000 INFO @ Tue, 09 Oct 2018 22:43:15: 12000000 INFO @ Tue, 09 Oct 2018 22:43:15: 12000000 INFO @ Tue, 09 Oct 2018 22:43:15: 12000000 INFO @ Tue, 09 Oct 2018 22:43:21: 13000000 INFO @ Tue, 09 Oct 2018 22:43:21: 13000000 INFO @ Tue, 09 Oct 2018 22:43:21: 13000000 INFO @ Tue, 09 Oct 2018 22:43:27: 14000000 INFO @ Tue, 09 Oct 2018 22:43:27: 14000000 INFO @ Tue, 09 Oct 2018 22:43:28: 14000000 INFO @ Tue, 09 Oct 2018 22:43:33: 15000000 INFO @ Tue, 09 Oct 2018 22:43:34: 15000000 INFO @ Tue, 09 Oct 2018 22:43:34: 15000000 INFO @ Tue, 09 Oct 2018 22:43:37: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:43:37: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:43:37: #1 total tags in treatment: 15558807 INFO @ Tue, 09 Oct 2018 22:43:37: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:43:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:43:37: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:43:37: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:43:37: #1 total tags in treatment: 15558807 INFO @ Tue, 09 Oct 2018 22:43:37: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:43:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:43:37: #1 tags after filtering in treatment: 15558807 INFO @ Tue, 09 Oct 2018 22:43:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:43:37: #1 finished! INFO @ Tue, 09 Oct 2018 22:43:37: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:43:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:43:37: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 22:43:37: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 22:43:37: #1 total tags in treatment: 15558807 INFO @ Tue, 09 Oct 2018 22:43:37: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 22:43:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 22:43:37: #1 tags after filtering in treatment: 15558807 INFO @ Tue, 09 Oct 2018 22:43:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:43:37: #1 finished! INFO @ Tue, 09 Oct 2018 22:43:37: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:43:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:43:38: #1 tags after filtering in treatment: 15558807 INFO @ Tue, 09 Oct 2018 22:43:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 09 Oct 2018 22:43:38: #1 finished! INFO @ Tue, 09 Oct 2018 22:43:38: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 22:43:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 22:43:38: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:43:38: 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 @ Tue, 09 Oct 2018 22:43:38: Process for pairing-model is terminated! cat: SRX4003428.10_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 `SRX4003428.10_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 `SRX4003428.10_*.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 `SRX4003428.10_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 @ Tue, 09 Oct 2018 22:43:38: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:43:38: 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 @ Tue, 09 Oct 2018 22:43:38: Process for pairing-model is terminated! cat: SRX4003428.20_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 `SRX4003428.20_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 `SRX4003428.20_*.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 `SRX4003428.20_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 @ Tue, 09 Oct 2018 22:43:39: #2 number of paired peaks: 0 WARNING @ Tue, 09 Oct 2018 22:43:39: 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 @ Tue, 09 Oct 2018 22:43:39: Process for pairing-model is terminated! cat: SRX4003428.05_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 `SRX4003428.05_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 `SRX4003428.05_*.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 `SRX4003428.05_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。