Job ID = 11192885 sra ファイルのダウンロード中... Completed: 800460K bytes transferred in 31 seconds (208221K 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: PAIRED fastq に変換中... Read 14269423 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771763/SRR5488918.sra Written 14269423 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771763/SRR5488918.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: 00:15:08 14269423 reads; of these: 14269423 (100.00%) were paired; of these: 2186661 (15.32%) aligned concordantly 0 times 9900925 (69.39%) aligned concordantly exactly 1 time 2181837 (15.29%) aligned concordantly >1 times ---- 2186661 pairs aligned concordantly 0 times; of these: 57923 (2.65%) aligned discordantly 1 time ---- 2128738 pairs aligned 0 times concordantly or discordantly; of these: 4257476 mates make up the pairs; of these: 3854808 (90.54%) aligned 0 times 331094 (7.78%) aligned exactly 1 time 71574 (1.68%) aligned >1 times 86.49% overall alignment rate Time searching: 00:15:08 Overall time: 00:15:08 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_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1393339 / 12109004 = 0.1151 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 10:40:00: # Command line: callpeak -t SRX2771763.bam -f BAM -g 12100000 -n SRX2771763.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2771763.10 # format = BAM # ChIP-seq file = ['SRX2771763.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 10:40:00: # Command line: callpeak -t SRX2771763.bam -f BAM -g 12100000 -n SRX2771763.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2771763.05 # format = BAM # ChIP-seq file = ['SRX2771763.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 10:40:00: # Command line: callpeak -t SRX2771763.bam -f BAM -g 12100000 -n SRX2771763.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2771763.20 # format = BAM # ChIP-seq file = ['SRX2771763.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 10:40:00: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:40:00: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:40:00: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:40:00: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:40:00: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:40:00: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:40:06: 1000000 INFO @ Sat, 15 Sep 2018 10:40:07: 1000000 INFO @ Sat, 15 Sep 2018 10:40:07: 1000000 INFO @ Sat, 15 Sep 2018 10:40:12: 2000000 INFO @ Sat, 15 Sep 2018 10:40:14: 2000000 INFO @ Sat, 15 Sep 2018 10:40:14: 2000000 INFO @ Sat, 15 Sep 2018 10:40:19: 3000000 INFO @ Sat, 15 Sep 2018 10:40:21: 3000000 INFO @ Sat, 15 Sep 2018 10:40:21: 3000000 INFO @ Sat, 15 Sep 2018 10:40:25: 4000000 INFO @ Sat, 15 Sep 2018 10:40:27: 4000000 INFO @ Sat, 15 Sep 2018 10:40:27: 4000000 INFO @ Sat, 15 Sep 2018 10:40:32: 5000000 INFO @ Sat, 15 Sep 2018 10:40:34: 5000000 INFO @ Sat, 15 Sep 2018 10:40:34: 5000000 INFO @ Sat, 15 Sep 2018 10:40:39: 6000000 INFO @ Sat, 15 Sep 2018 10:40:40: 6000000 INFO @ Sat, 15 Sep 2018 10:40:40: 6000000 INFO @ Sat, 15 Sep 2018 10:40:45: 7000000 INFO @ Sat, 15 Sep 2018 10:40:47: 7000000 INFO @ Sat, 15 Sep 2018 10:40:47: 7000000 INFO @ Sat, 15 Sep 2018 10:40:51: 8000000 INFO @ Sat, 15 Sep 2018 10:40:54: 8000000 INFO @ Sat, 15 Sep 2018 10:40:54: 8000000 INFO @ Sat, 15 Sep 2018 10:40:57: 9000000 INFO @ Sat, 15 Sep 2018 10:41:01: 9000000 INFO @ Sat, 15 Sep 2018 10:41:01: 9000000 INFO @ Sat, 15 Sep 2018 10:41:03: 10000000 INFO @ Sat, 15 Sep 2018 10:41:08: 10000000 INFO @ Sat, 15 Sep 2018 10:41:08: 10000000 INFO @ Sat, 15 Sep 2018 10:41:10: 11000000 INFO @ Sat, 15 Sep 2018 10:41:15: 11000000 INFO @ Sat, 15 Sep 2018 10:41:15: 11000000 INFO @ Sat, 15 Sep 2018 10:41:16: 12000000 INFO @ Sat, 15 Sep 2018 10:41:22: 12000000 INFO @ Sat, 15 Sep 2018 10:41:22: 12000000 INFO @ Sat, 15 Sep 2018 10:41:22: 13000000 INFO @ Sat, 15 Sep 2018 10:41:28: 14000000 INFO @ Sat, 15 Sep 2018 10:41:29: 13000000 INFO @ Sat, 15 Sep 2018 10:41:29: 13000000 INFO @ Sat, 15 Sep 2018 10:41:34: 15000000 INFO @ Sat, 15 Sep 2018 10:41:35: 14000000 INFO @ Sat, 15 Sep 2018 10:41:35: 14000000 INFO @ Sat, 15 Sep 2018 10:41:41: 16000000 INFO @ Sat, 15 Sep 2018 10:41:42: 15000000 INFO @ Sat, 15 Sep 2018 10:41:42: 15000000 INFO @ Sat, 15 Sep 2018 10:41:47: 17000000 INFO @ Sat, 15 Sep 2018 10:41:49: 16000000 INFO @ Sat, 15 Sep 2018 10:41:49: 16000000 INFO @ Sat, 15 Sep 2018 10:41:53: 18000000 INFO @ Sat, 15 Sep 2018 10:41:56: 17000000 INFO @ Sat, 15 Sep 2018 10:41:56: 17000000 INFO @ Sat, 15 Sep 2018 10:42:00: 19000000 INFO @ Sat, 15 Sep 2018 10:42:04: 18000000 INFO @ Sat, 15 Sep 2018 10:42:04: 18000000 INFO @ Sat, 15 Sep 2018 10:42:08: 20000000 INFO @ Sat, 15 Sep 2018 10:42:11: 19000000 INFO @ Sat, 15 Sep 2018 10:42:11: 19000000 INFO @ Sat, 15 Sep 2018 10:42:16: 21000000 INFO @ Sat, 15 Sep 2018 10:42:19: 20000000 INFO @ Sat, 15 Sep 2018 10:42:19: 20000000 INFO @ Sat, 15 Sep 2018 10:42:23: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:42:23: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:42:23: #1 total tags in treatment: 10690395 INFO @ Sat, 15 Sep 2018 10:42:23: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:42:23: #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 10:42:24: #1 tags after filtering in treatment: 7181735 INFO @ Sat, 15 Sep 2018 10:42:24: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Sep 2018 10:42:24: #1 finished! INFO @ Sat, 15 Sep 2018 10:42:24: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:42:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:42:24: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:42:24: 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 10:42:24: Process for pairing-model is terminated! cat: SRX2771763.05_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 `SRX2771763.05_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 `SRX2771763.05_*.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 `SRX2771763.05_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 10:42:26: 21000000 INFO @ Sat, 15 Sep 2018 10:42:26: 21000000 INFO @ Sat, 15 Sep 2018 10:42:33: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:42:33: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:42:33: #1 total tags in treatment: 10690395 INFO @ Sat, 15 Sep 2018 10:42:33: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:42:33: #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 10:42:33: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:42:33: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:42:33: #1 total tags in treatment: 10690395 INFO @ Sat, 15 Sep 2018 10:42:33: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:42:33: #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 10:42:33: #1 tags after filtering in treatment: 7181735 INFO @ Sat, 15 Sep 2018 10:42:33: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Sep 2018 10:42:33: #1 finished! INFO @ Sat, 15 Sep 2018 10:42:33: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:42:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:42:33: #1 tags after filtering in treatment: 7181735 INFO @ Sat, 15 Sep 2018 10:42:33: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Sep 2018 10:42:33: #1 finished! INFO @ Sat, 15 Sep 2018 10:42:33: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:42:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:42:33: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:42:33: 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 10:42:33: Process for pairing-model is terminated! cat: SRX2771763.20_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 `SRX2771763.20_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 `SRX2771763.20_*.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 `SRX2771763.20_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 10:42:34: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:42:34: 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 10:42:34: Process for pairing-model is terminated! cat: SRX2771763.10_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 `SRX2771763.10_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 `SRX2771763.10_*.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 `SRX2771763.10_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。