Job ID = 9162211 sra ファイルのダウンロード中... Completed: 1416703K bytes transferred in 13 seconds (844227K bits/sec), in 1 file, 2 directories. 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... Written 46225423 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1738683/SRR3471214.sra Written 46225423 spots total 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: 00:09:41 46225423 reads; of these: 46225423 (100.00%) were unpaired; of these: 1822328 (3.94%) aligned 0 times 37402758 (80.91%) aligned exactly 1 time 7000337 (15.14%) aligned >1 times 96.06% overall alignment rate Time searching: 00:09:41 Overall time: 00:09:41 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 20 files... [bam_rmdupse_core] 25867271 / 44403095 = 0.5826 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 @ Wed, 28 Jun 2017 07:11:54: # Command line: callpeak -t SRX1738683.bam -f BAM -g 12100000 -n SRX1738683.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1738683.20 # format = BAM # ChIP-seq file = ['SRX1738683.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 @ Wed, 28 Jun 2017 07:11:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:11:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:11:54: # Command line: callpeak -t SRX1738683.bam -f BAM -g 12100000 -n SRX1738683.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1738683.10 # format = BAM # ChIP-seq file = ['SRX1738683.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 @ Wed, 28 Jun 2017 07:11:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:11:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:11:54: # Command line: callpeak -t SRX1738683.bam -f BAM -g 12100000 -n SRX1738683.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1738683.05 # format = BAM # ChIP-seq file = ['SRX1738683.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 @ Wed, 28 Jun 2017 07:11:54: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:11:54: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:12:01: 1000000 INFO @ Wed, 28 Jun 2017 07:12:02: 1000000 INFO @ Wed, 28 Jun 2017 07:12:02: 1000000 INFO @ Wed, 28 Jun 2017 07:12:09: 2000000 INFO @ Wed, 28 Jun 2017 07:12:11: 2000000 INFO @ Wed, 28 Jun 2017 07:12:11: 2000000 INFO @ Wed, 28 Jun 2017 07:12:16: 3000000 INFO @ Wed, 28 Jun 2017 07:12:19: 3000000 INFO @ Wed, 28 Jun 2017 07:12:19: 3000000 INFO @ Wed, 28 Jun 2017 07:12:23: 4000000 INFO @ Wed, 28 Jun 2017 07:12:27: 4000000 INFO @ Wed, 28 Jun 2017 07:12:27: 4000000 INFO @ Wed, 28 Jun 2017 07:12:30: 5000000 INFO @ Wed, 28 Jun 2017 07:12:36: 5000000 INFO @ Wed, 28 Jun 2017 07:12:36: 5000000 INFO @ Wed, 28 Jun 2017 07:12:39: 6000000 INFO @ Wed, 28 Jun 2017 07:12:44: 6000000 INFO @ Wed, 28 Jun 2017 07:12:44: 6000000 INFO @ Wed, 28 Jun 2017 07:12:48: 7000000 INFO @ Wed, 28 Jun 2017 07:12:52: 7000000 INFO @ Wed, 28 Jun 2017 07:12:52: 7000000 INFO @ Wed, 28 Jun 2017 07:12:57: 8000000 INFO @ Wed, 28 Jun 2017 07:13:01: 8000000 INFO @ Wed, 28 Jun 2017 07:13:01: 8000000 INFO @ Wed, 28 Jun 2017 07:13:06: 9000000 INFO @ Wed, 28 Jun 2017 07:13:09: 9000000 INFO @ Wed, 28 Jun 2017 07:13:09: 9000000 INFO @ Wed, 28 Jun 2017 07:13:15: 10000000 INFO @ Wed, 28 Jun 2017 07:13:18: 10000000 INFO @ Wed, 28 Jun 2017 07:13:18: 10000000 INFO @ Wed, 28 Jun 2017 07:13:25: 11000000 INFO @ Wed, 28 Jun 2017 07:13:26: 11000000 INFO @ Wed, 28 Jun 2017 07:13:26: 11000000 INFO @ Wed, 28 Jun 2017 07:13:34: 12000000 INFO @ Wed, 28 Jun 2017 07:13:35: 12000000 INFO @ Wed, 28 Jun 2017 07:13:35: 12000000 INFO @ Wed, 28 Jun 2017 07:13:42: 13000000 INFO @ Wed, 28 Jun 2017 07:13:43: 13000000 INFO @ Wed, 28 Jun 2017 07:13:43: 13000000 INFO @ Wed, 28 Jun 2017 07:13:49: 14000000 INFO @ Wed, 28 Jun 2017 07:13:49: 14000000 INFO @ Wed, 28 Jun 2017 07:13:49: 14000000 INFO @ Wed, 28 Jun 2017 07:13:56: 15000000 INFO @ Wed, 28 Jun 2017 07:13:56: 15000000 INFO @ Wed, 28 Jun 2017 07:13:56: 15000000 INFO @ Wed, 28 Jun 2017 07:14:03: 16000000 INFO @ Wed, 28 Jun 2017 07:14:03: 16000000 INFO @ Wed, 28 Jun 2017 07:14:04: 16000000 INFO @ Wed, 28 Jun 2017 07:14:10: 17000000 INFO @ Wed, 28 Jun 2017 07:14:10: 17000000 INFO @ Wed, 28 Jun 2017 07:14:12: 17000000 INFO @ Wed, 28 Jun 2017 07:14:17: 18000000 INFO @ Wed, 28 Jun 2017 07:14:18: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 07:14:20: 18000000 INFO @ Wed, 28 Jun 2017 07:14:21: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 07:14:21: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 07:14:21: #1 total tags in treatment: 18535824 INFO @ Wed, 28 Jun 2017 07:14:21: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:14:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:14:22: #1 tags after filtering in treatment: 18535824 INFO @ Wed, 28 Jun 2017 07:14:22: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:14:22: #1 finished! INFO @ Wed, 28 Jun 2017 07:14:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:14:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:14:22: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 07:14:22: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 07:14:22: #1 total tags in treatment: 18535824 INFO @ Wed, 28 Jun 2017 07:14:22: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:14:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:14:22: #1 tags after filtering in treatment: 18535824 INFO @ Wed, 28 Jun 2017 07:14:22: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:14:22: #1 finished! INFO @ Wed, 28 Jun 2017 07:14:22: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:14:22: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:14:23: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:14:23: 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 @ Wed, 28 Jun 2017 07:14:23: Process for pairing-model is terminated! cat: SRX1738683.10_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 `SRX1738683.10_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 `SRX1738683.10_*.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 `SRX1738683.10_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 @ Wed, 28 Jun 2017 07:14:23: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:14:23: 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 @ Wed, 28 Jun 2017 07:14:23: Process for pairing-model is terminated! cat: SRX1738683.05_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 `SRX1738683.05_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 `SRX1738683.05_*.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 `SRX1738683.05_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 @ Wed, 28 Jun 2017 07:14:24: #1 tag size is determined as 49 bps INFO @ Wed, 28 Jun 2017 07:14:24: #1 tag size = 49 INFO @ Wed, 28 Jun 2017 07:14:24: #1 total tags in treatment: 18535824 INFO @ Wed, 28 Jun 2017 07:14:24: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 07:14:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 07:14:24: #1 tags after filtering in treatment: 18535824 INFO @ Wed, 28 Jun 2017 07:14:24: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 28 Jun 2017 07:14:24: #1 finished! INFO @ Wed, 28 Jun 2017 07:14:24: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 07:14:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 07:14:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 07:14:25: 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 @ Wed, 28 Jun 2017 07:14:25: Process for pairing-model is terminated! cat: SRX1738683.20_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 `SRX1738683.20_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 `SRX1738683.20_*.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 `SRX1738683.20_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 BigWig に変換しました。