Job ID = 10924625 sra ファイルのダウンロード中... Completed: 917211K bytes transferred in 15 seconds (500360K 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 29504491 spots for /home/okishinya/chipatlas/results/dm3/SRX3989970/SRR7059011.sra Written 29504491 spots for /home/okishinya/chipatlas/results/dm3/SRX3989970/SRR7059011.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: 00:10:14 29504491 reads; of these: 29504491 (100.00%) were unpaired; of these: 1703966 (5.78%) aligned 0 times 22896904 (77.60%) aligned exactly 1 time 4903621 (16.62%) aligned >1 times 94.22% overall alignment rate Time searching: 00:10:14 Overall time: 00:10:14 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 7756325 / 27800525 = 0.2790 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 @ Mon, 06 Aug 2018 10:45:42: # Command line: callpeak -t SRX3989970.bam -f BAM -g dm -n SRX3989970.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3989970.05 # format = BAM # ChIP-seq file = ['SRX3989970.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Aug 2018 10:45:42: # Command line: callpeak -t SRX3989970.bam -f BAM -g dm -n SRX3989970.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3989970.10 # format = BAM # ChIP-seq file = ['SRX3989970.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Aug 2018 10:45:42: # Command line: callpeak -t SRX3989970.bam -f BAM -g dm -n SRX3989970.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3989970.20 # format = BAM # ChIP-seq file = ['SRX3989970.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Mon, 06 Aug 2018 10:45:42: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:45:42: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:45:42: #1 read tag files... INFO @ Mon, 06 Aug 2018 10:45:42: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:45:42: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:45:42: #1 read treatment tags... INFO @ Mon, 06 Aug 2018 10:45:49: 1000000 INFO @ Mon, 06 Aug 2018 10:45:49: 1000000 INFO @ Mon, 06 Aug 2018 10:45:49: 1000000 INFO @ Mon, 06 Aug 2018 10:45:56: 2000000 INFO @ Mon, 06 Aug 2018 10:45:57: 2000000 INFO @ Mon, 06 Aug 2018 10:45:57: 2000000 INFO @ Mon, 06 Aug 2018 10:46:03: 3000000 INFO @ Mon, 06 Aug 2018 10:46:04: 3000000 INFO @ Mon, 06 Aug 2018 10:46:04: 3000000 INFO @ Mon, 06 Aug 2018 10:46:10: 4000000 INFO @ Mon, 06 Aug 2018 10:46:12: 4000000 INFO @ Mon, 06 Aug 2018 10:46:12: 4000000 INFO @ Mon, 06 Aug 2018 10:46:17: 5000000 INFO @ Mon, 06 Aug 2018 10:46:19: 5000000 INFO @ Mon, 06 Aug 2018 10:46:19: 5000000 INFO @ Mon, 06 Aug 2018 10:46:24: 6000000 INFO @ Mon, 06 Aug 2018 10:46:26: 6000000 INFO @ Mon, 06 Aug 2018 10:46:27: 6000000 INFO @ Mon, 06 Aug 2018 10:46:31: 7000000 INFO @ Mon, 06 Aug 2018 10:46:34: 7000000 INFO @ Mon, 06 Aug 2018 10:46:35: 7000000 INFO @ Mon, 06 Aug 2018 10:46:39: 8000000 INFO @ Mon, 06 Aug 2018 10:46:41: 8000000 INFO @ Mon, 06 Aug 2018 10:46:42: 8000000 INFO @ Mon, 06 Aug 2018 10:46:45: 9000000 INFO @ Mon, 06 Aug 2018 10:46:49: 9000000 INFO @ Mon, 06 Aug 2018 10:46:50: 9000000 INFO @ Mon, 06 Aug 2018 10:46:52: 10000000 INFO @ Mon, 06 Aug 2018 10:46:57: 10000000 INFO @ Mon, 06 Aug 2018 10:46:58: 10000000 INFO @ Mon, 06 Aug 2018 10:46:59: 11000000 INFO @ Mon, 06 Aug 2018 10:47:05: 11000000 INFO @ Mon, 06 Aug 2018 10:47:06: 12000000 INFO @ Mon, 06 Aug 2018 10:47:07: 11000000 INFO @ Mon, 06 Aug 2018 10:47:13: 13000000 INFO @ Mon, 06 Aug 2018 10:47:13: 12000000 INFO @ Mon, 06 Aug 2018 10:47:15: 12000000 INFO @ Mon, 06 Aug 2018 10:47:19: 14000000 INFO @ Mon, 06 Aug 2018 10:47:21: 13000000 INFO @ Mon, 06 Aug 2018 10:47:23: 13000000 INFO @ Mon, 06 Aug 2018 10:47:26: 15000000 INFO @ Mon, 06 Aug 2018 10:47:29: 14000000 INFO @ Mon, 06 Aug 2018 10:47:30: 14000000 INFO @ Mon, 06 Aug 2018 10:47:33: 16000000 INFO @ Mon, 06 Aug 2018 10:47:37: 15000000 INFO @ Mon, 06 Aug 2018 10:47:38: 15000000 INFO @ Mon, 06 Aug 2018 10:47:40: 17000000 INFO @ Mon, 06 Aug 2018 10:47:45: 16000000 INFO @ Mon, 06 Aug 2018 10:47:46: 16000000 INFO @ Mon, 06 Aug 2018 10:47:47: 18000000 INFO @ Mon, 06 Aug 2018 10:47:53: 17000000 INFO @ Mon, 06 Aug 2018 10:47:53: 19000000 INFO @ Mon, 06 Aug 2018 10:47:54: 17000000 INFO @ Mon, 06 Aug 2018 10:48:00: 20000000 INFO @ Mon, 06 Aug 2018 10:48:01: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 10:48:01: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 10:48:01: #1 total tags in treatment: 20044200 INFO @ Mon, 06 Aug 2018 10:48:01: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:48:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:48:01: #1 tags after filtering in treatment: 20044200 INFO @ Mon, 06 Aug 2018 10:48:01: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:48:01: #1 finished! INFO @ Mon, 06 Aug 2018 10:48:01: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:48:01: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:48:01: 18000000 INFO @ Mon, 06 Aug 2018 10:48:02: #2 number of paired peaks: 0 WARNING @ Mon, 06 Aug 2018 10:48:02: 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 @ Mon, 06 Aug 2018 10:48:02: Process for pairing-model is terminated! cat: SRX3989970.20_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 `SRX3989970.20_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 `SRX3989970.20_*.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 `SRX3989970.20_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 @ Mon, 06 Aug 2018 10:48:02: 18000000 INFO @ Mon, 06 Aug 2018 10:48:09: 19000000 INFO @ Mon, 06 Aug 2018 10:48:10: 19000000 INFO @ Mon, 06 Aug 2018 10:48:17: 20000000 INFO @ Mon, 06 Aug 2018 10:48:17: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 10:48:17: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 10:48:17: #1 total tags in treatment: 20044200 INFO @ Mon, 06 Aug 2018 10:48:17: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:48:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:48:17: #1 tags after filtering in treatment: 20044200 INFO @ Mon, 06 Aug 2018 10:48:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:48:17: #1 finished! INFO @ Mon, 06 Aug 2018 10:48:17: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:48:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:48:18: 20000000 INFO @ Mon, 06 Aug 2018 10:48:18: #1 tag size is determined as 49 bps INFO @ Mon, 06 Aug 2018 10:48:18: #1 tag size = 49 INFO @ Mon, 06 Aug 2018 10:48:18: #1 total tags in treatment: 20044200 INFO @ Mon, 06 Aug 2018 10:48:18: #1 user defined the maximum tags... INFO @ Mon, 06 Aug 2018 10:48:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Aug 2018 10:48:18: #1 tags after filtering in treatment: 20044200 INFO @ Mon, 06 Aug 2018 10:48:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Aug 2018 10:48:18: #1 finished! INFO @ Mon, 06 Aug 2018 10:48:18: #2 Build Peak Model... INFO @ Mon, 06 Aug 2018 10:48:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Aug 2018 10:48:19: #2 number of paired peaks: 0 WARNING @ Mon, 06 Aug 2018 10:48:19: 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 @ Mon, 06 Aug 2018 10:48:19: Process for pairing-model is terminated! cat: SRX3989970.05_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 `SRX3989970.05_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 `SRX3989970.05_*.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 `SRX3989970.05_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 @ Mon, 06 Aug 2018 10:48:20: #2 number of paired peaks: 0 WARNING @ Mon, 06 Aug 2018 10:48:20: 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 @ Mon, 06 Aug 2018 10:48:20: Process for pairing-model is terminated! cat: SRX3989970.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3989970.10_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 `SRX3989970.10_*.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 `SRX3989970.10_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。