Job ID = 11192884 sra ファイルのダウンロード中... Completed: 765740K bytes transferred in 30 seconds (203900K 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 13728455 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771762/SRR5488917.sra Written 13728455 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771762/SRR5488917.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: 00:16:08 13728455 reads; of these: 13728455 (100.00%) were paired; of these: 1025895 (7.47%) aligned concordantly 0 times 11232062 (81.82%) aligned concordantly exactly 1 time 1470498 (10.71%) aligned concordantly >1 times ---- 1025895 pairs aligned concordantly 0 times; of these: 182718 (17.81%) aligned discordantly 1 time ---- 843177 pairs aligned 0 times concordantly or discordantly; of these: 1686354 mates make up the pairs; of these: 1323793 (78.50%) aligned 0 times 263994 (15.65%) aligned exactly 1 time 98567 (5.84%) aligned >1 times 95.18% overall alignment rate Time searching: 00:16:08 Overall time: 00:16:08 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] 655722 / 12872215 = 0.0509 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 10:41:53: # Command line: callpeak -t SRX2771762.bam -f BAM -g 12100000 -n SRX2771762.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2771762.10 # format = BAM # ChIP-seq file = ['SRX2771762.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 10:41:53: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:41:53: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:41:53: # Command line: callpeak -t SRX2771762.bam -f BAM -g 12100000 -n SRX2771762.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2771762.20 # format = BAM # ChIP-seq file = ['SRX2771762.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 10:41:53: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:41:53: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:41:53: # Command line: callpeak -t SRX2771762.bam -f BAM -g 12100000 -n SRX2771762.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2771762.05 # format = BAM # ChIP-seq file = ['SRX2771762.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 10:41:53: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:41:53: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:42:02: 1000000 INFO @ Sat, 15 Sep 2018 10:42:02: 1000000 INFO @ Sat, 15 Sep 2018 10:42:03: 1000000 INFO @ Sat, 15 Sep 2018 10:42:11: 2000000 INFO @ Sat, 15 Sep 2018 10:42:11: 2000000 INFO @ Sat, 15 Sep 2018 10:42:13: 2000000 INFO @ Sat, 15 Sep 2018 10:42:20: 3000000 INFO @ Sat, 15 Sep 2018 10:42:20: 3000000 INFO @ Sat, 15 Sep 2018 10:42:23: 3000000 INFO @ Sat, 15 Sep 2018 10:42:28: 4000000 INFO @ Sat, 15 Sep 2018 10:42:28: 4000000 INFO @ Sat, 15 Sep 2018 10:42:33: 4000000 INFO @ Sat, 15 Sep 2018 10:42:35: 5000000 INFO @ Sat, 15 Sep 2018 10:42:35: 5000000 INFO @ Sat, 15 Sep 2018 10:42:41: 5000000 INFO @ Sat, 15 Sep 2018 10:42:43: 6000000 INFO @ Sat, 15 Sep 2018 10:42:43: 6000000 INFO @ Sat, 15 Sep 2018 10:42:48: 6000000 INFO @ Sat, 15 Sep 2018 10:42:50: 7000000 INFO @ Sat, 15 Sep 2018 10:42:50: 7000000 INFO @ Sat, 15 Sep 2018 10:42:55: 7000000 INFO @ Sat, 15 Sep 2018 10:42:58: 8000000 INFO @ Sat, 15 Sep 2018 10:42:58: 8000000 INFO @ Sat, 15 Sep 2018 10:43:03: 8000000 INFO @ Sat, 15 Sep 2018 10:43:06: 9000000 INFO @ Sat, 15 Sep 2018 10:43:06: 9000000 INFO @ Sat, 15 Sep 2018 10:43:10: 9000000 INFO @ Sat, 15 Sep 2018 10:43:14: 10000000 INFO @ Sat, 15 Sep 2018 10:43:14: 10000000 INFO @ Sat, 15 Sep 2018 10:43:18: 10000000 INFO @ Sat, 15 Sep 2018 10:43:21: 11000000 INFO @ Sat, 15 Sep 2018 10:43:21: 11000000 INFO @ Sat, 15 Sep 2018 10:43:27: 11000000 INFO @ Sat, 15 Sep 2018 10:43:29: 12000000 INFO @ Sat, 15 Sep 2018 10:43:29: 12000000 INFO @ Sat, 15 Sep 2018 10:43:35: 12000000 INFO @ Sat, 15 Sep 2018 10:43:36: 13000000 INFO @ Sat, 15 Sep 2018 10:43:36: 13000000 INFO @ Sat, 15 Sep 2018 10:43:43: 13000000 INFO @ Sat, 15 Sep 2018 10:43:44: 14000000 INFO @ Sat, 15 Sep 2018 10:43:44: 14000000 INFO @ Sat, 15 Sep 2018 10:43:51: 15000000 INFO @ Sat, 15 Sep 2018 10:43:51: 15000000 INFO @ Sat, 15 Sep 2018 10:43:52: 14000000 INFO @ Sat, 15 Sep 2018 10:43:59: 16000000 INFO @ Sat, 15 Sep 2018 10:43:59: 16000000 INFO @ Sat, 15 Sep 2018 10:44:00: 15000000 INFO @ Sat, 15 Sep 2018 10:44:06: 17000000 INFO @ Sat, 15 Sep 2018 10:44:06: 17000000 INFO @ Sat, 15 Sep 2018 10:44:09: 16000000 INFO @ Sat, 15 Sep 2018 10:44:14: 18000000 INFO @ Sat, 15 Sep 2018 10:44:14: 18000000 INFO @ Sat, 15 Sep 2018 10:44:17: 17000000 INFO @ Sat, 15 Sep 2018 10:44:21: 19000000 INFO @ Sat, 15 Sep 2018 10:44:21: 19000000 INFO @ Sat, 15 Sep 2018 10:44:25: 18000000 INFO @ Sat, 15 Sep 2018 10:44:29: 20000000 INFO @ Sat, 15 Sep 2018 10:44:29: 20000000 INFO @ Sat, 15 Sep 2018 10:44:34: 19000000 INFO @ Sat, 15 Sep 2018 10:44:36: 21000000 INFO @ Sat, 15 Sep 2018 10:44:36: 21000000 INFO @ Sat, 15 Sep 2018 10:44:43: 20000000 INFO @ Sat, 15 Sep 2018 10:44:43: 22000000 INFO @ Sat, 15 Sep 2018 10:44:43: 22000000 INFO @ Sat, 15 Sep 2018 10:44:50: 23000000 INFO @ Sat, 15 Sep 2018 10:44:50: 23000000 INFO @ Sat, 15 Sep 2018 10:44:51: 21000000 INFO @ Sat, 15 Sep 2018 10:44:57: 24000000 INFO @ Sat, 15 Sep 2018 10:44:57: 24000000 INFO @ Sat, 15 Sep 2018 10:45:00: 22000000 INFO @ Sat, 15 Sep 2018 10:45:03: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:45:03: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:45:03: #1 total tags in treatment: 12051228 INFO @ Sat, 15 Sep 2018 10:45:03: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:45:03: #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 10:45:03: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:45:03: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:45:03: #1 total tags in treatment: 12051228 INFO @ Sat, 15 Sep 2018 10:45:03: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:45:03: #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 10:45:03: #1 tags after filtering in treatment: 8464944 INFO @ Sat, 15 Sep 2018 10:45:03: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Sep 2018 10:45:03: #1 finished! INFO @ Sat, 15 Sep 2018 10:45:03: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:45:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:45:03: #1 tags after filtering in treatment: 8464944 INFO @ Sat, 15 Sep 2018 10:45:03: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Sep 2018 10:45:03: #1 finished! INFO @ Sat, 15 Sep 2018 10:45:03: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:45:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:45:04: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:45:04: 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 10:45:04: Process for pairing-model is terminated! cat: SRX2771762.10_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 `SRX2771762.10_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 `SRX2771762.10_*.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 `SRX2771762.10_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 @ Sat, 15 Sep 2018 10:45:04: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:45:04: 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 10:45:04: Process for pairing-model is terminated! cat: SRX2771762.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2771762.20_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 `SRX2771762.20_*.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 `SRX2771762.20_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 10:45:09: 23000000 INFO @ Sat, 15 Sep 2018 10:45:17: 24000000 INFO @ Sat, 15 Sep 2018 10:45:23: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:45:23: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:45:23: #1 total tags in treatment: 12051228 INFO @ Sat, 15 Sep 2018 10:45:23: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:45:23: #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 10:45:24: #1 tags after filtering in treatment: 8464944 INFO @ Sat, 15 Sep 2018 10:45:24: #1 Redundant rate of treatment: 0.30 INFO @ Sat, 15 Sep 2018 10:45:24: #1 finished! INFO @ Sat, 15 Sep 2018 10:45:24: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:45:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:45:24: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:45:24: 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 10:45:24: Process for pairing-model is terminated! cat: SRX2771762.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2771762.05_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 `SRX2771762.05_*.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 `SRX2771762.05_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。