Job ID = 11192893 sra ファイルのダウンロード中... Completed: 1130404K bytes transferred in 64 seconds (143999K 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 15766374 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771771/SRR5488926.sra Written 15766374 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771771/SRR5488926.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: 00:14:11 15766374 reads; of these: 15766374 (100.00%) were paired; of these: 2339763 (14.84%) aligned concordantly 0 times 11439217 (72.55%) aligned concordantly exactly 1 time 1987394 (12.61%) aligned concordantly >1 times ---- 2339763 pairs aligned concordantly 0 times; of these: 28733 (1.23%) aligned discordantly 1 time ---- 2311030 pairs aligned 0 times concordantly or discordantly; of these: 4622060 mates make up the pairs; of these: 4283808 (92.68%) aligned 0 times 285885 (6.19%) aligned exactly 1 time 52367 (1.13%) aligned >1 times 86.41% overall alignment rate Time searching: 00:14:11 Overall time: 00:14:11 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] 1631956 / 13430944 = 0.1215 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 10:44:47: # Command line: callpeak -t SRX2771771.bam -f BAM -g 12100000 -n SRX2771771.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2771771.05 # format = BAM # ChIP-seq file = ['SRX2771771.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 10:44:47: # Command line: callpeak -t SRX2771771.bam -f BAM -g 12100000 -n SRX2771771.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2771771.10 # format = BAM # ChIP-seq file = ['SRX2771771.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 10:44:47: # Command line: callpeak -t SRX2771771.bam -f BAM -g 12100000 -n SRX2771771.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2771771.20 # format = BAM # ChIP-seq file = ['SRX2771771.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 10:44:47: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:44:47: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:44:47: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:44:47: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:44:47: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:44:47: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:44:55: 1000000 INFO @ Sat, 15 Sep 2018 10:44:55: 1000000 INFO @ Sat, 15 Sep 2018 10:44:55: 1000000 INFO @ Sat, 15 Sep 2018 10:45:03: 2000000 INFO @ Sat, 15 Sep 2018 10:45:03: 2000000 INFO @ Sat, 15 Sep 2018 10:45:03: 2000000 INFO @ Sat, 15 Sep 2018 10:45:11: 3000000 INFO @ Sat, 15 Sep 2018 10:45:11: 3000000 INFO @ Sat, 15 Sep 2018 10:45:11: 3000000 INFO @ Sat, 15 Sep 2018 10:45:18: 4000000 INFO @ Sat, 15 Sep 2018 10:45:18: 4000000 INFO @ Sat, 15 Sep 2018 10:45:19: 4000000 INFO @ Sat, 15 Sep 2018 10:45:26: 5000000 INFO @ Sat, 15 Sep 2018 10:45:26: 5000000 INFO @ Sat, 15 Sep 2018 10:45:26: 5000000 INFO @ Sat, 15 Sep 2018 10:45:34: 6000000 INFO @ Sat, 15 Sep 2018 10:45:34: 6000000 INFO @ Sat, 15 Sep 2018 10:45:34: 6000000 INFO @ Sat, 15 Sep 2018 10:45:42: 7000000 INFO @ Sat, 15 Sep 2018 10:45:42: 7000000 INFO @ Sat, 15 Sep 2018 10:45:42: 7000000 INFO @ Sat, 15 Sep 2018 10:45:50: 8000000 INFO @ Sat, 15 Sep 2018 10:45:50: 8000000 INFO @ Sat, 15 Sep 2018 10:45:50: 8000000 INFO @ Sat, 15 Sep 2018 10:45:57: 9000000 INFO @ Sat, 15 Sep 2018 10:45:58: 9000000 INFO @ Sat, 15 Sep 2018 10:45:58: 9000000 INFO @ Sat, 15 Sep 2018 10:46:05: 10000000 INFO @ Sat, 15 Sep 2018 10:46:05: 10000000 INFO @ Sat, 15 Sep 2018 10:46:06: 10000000 INFO @ Sat, 15 Sep 2018 10:46:13: 11000000 INFO @ Sat, 15 Sep 2018 10:46:13: 11000000 INFO @ Sat, 15 Sep 2018 10:46:14: 11000000 INFO @ Sat, 15 Sep 2018 10:46:20: 12000000 INFO @ Sat, 15 Sep 2018 10:46:20: 12000000 INFO @ Sat, 15 Sep 2018 10:46:21: 12000000 INFO @ Sat, 15 Sep 2018 10:46:28: 13000000 INFO @ Sat, 15 Sep 2018 10:46:28: 13000000 INFO @ Sat, 15 Sep 2018 10:46:29: 13000000 INFO @ Sat, 15 Sep 2018 10:46:36: 14000000 INFO @ Sat, 15 Sep 2018 10:46:36: 14000000 INFO @ Sat, 15 Sep 2018 10:46:37: 14000000 INFO @ Sat, 15 Sep 2018 10:46:44: 15000000 INFO @ Sat, 15 Sep 2018 10:46:44: 15000000 INFO @ Sat, 15 Sep 2018 10:46:44: 15000000 INFO @ Sat, 15 Sep 2018 10:46:52: 16000000 INFO @ Sat, 15 Sep 2018 10:46:53: 16000000 INFO @ Sat, 15 Sep 2018 10:46:53: 16000000 INFO @ Sat, 15 Sep 2018 10:47:00: 17000000 INFO @ Sat, 15 Sep 2018 10:47:01: 17000000 INFO @ Sat, 15 Sep 2018 10:47:01: 17000000 INFO @ Sat, 15 Sep 2018 10:47:08: 18000000 INFO @ Sat, 15 Sep 2018 10:47:09: 18000000 INFO @ Sat, 15 Sep 2018 10:47:09: 18000000 INFO @ Sat, 15 Sep 2018 10:47:17: 19000000 INFO @ Sat, 15 Sep 2018 10:47:17: 19000000 INFO @ Sat, 15 Sep 2018 10:47:17: 19000000 INFO @ Sat, 15 Sep 2018 10:47:25: 20000000 INFO @ Sat, 15 Sep 2018 10:47:26: 20000000 INFO @ Sat, 15 Sep 2018 10:47:26: 20000000 INFO @ Sat, 15 Sep 2018 10:47:33: 21000000 INFO @ Sat, 15 Sep 2018 10:47:34: 21000000 INFO @ Sat, 15 Sep 2018 10:47:34: 21000000 INFO @ Sat, 15 Sep 2018 10:47:41: 22000000 INFO @ Sat, 15 Sep 2018 10:47:42: 22000000 INFO @ Sat, 15 Sep 2018 10:47:42: 22000000 INFO @ Sat, 15 Sep 2018 10:47:49: 23000000 INFO @ Sat, 15 Sep 2018 10:47:51: 23000000 INFO @ Sat, 15 Sep 2018 10:47:51: 23000000 INFO @ Sat, 15 Sep 2018 10:47:57: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:47:57: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:47:57: #1 total tags in treatment: 11794947 INFO @ Sat, 15 Sep 2018 10:47:57: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:47:57: #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 10:47:57: #1 tags after filtering in treatment: 8081137 INFO @ Sat, 15 Sep 2018 10:47:57: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Sep 2018 10:47:57: #1 finished! INFO @ Sat, 15 Sep 2018 10:47:57: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:47:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:47:58: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:47:58: 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 10:47:58: Process for pairing-model is terminated! cat: SRX2771771.20_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 `SRX2771771.20_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 `SRX2771771.20_*.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 `SRX2771771.20_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 10:47:59: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:47:59: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:47:59: #1 total tags in treatment: 11794947 INFO @ Sat, 15 Sep 2018 10:47:59: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:47:59: #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 10:47:59: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:47:59: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:47:59: #1 total tags in treatment: 11794947 INFO @ Sat, 15 Sep 2018 10:47:59: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:47:59: #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 10:47:59: #1 tags after filtering in treatment: 8081137 INFO @ Sat, 15 Sep 2018 10:47:59: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Sep 2018 10:47:59: #1 finished! INFO @ Sat, 15 Sep 2018 10:47:59: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:47:59: #1 tags after filtering in treatment: 8081137 INFO @ Sat, 15 Sep 2018 10:47:59: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Sep 2018 10:47:59: #1 finished! INFO @ Sat, 15 Sep 2018 10:47:59: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:48:00: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:48:00: 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 10:48:00: Process for pairing-model is terminated! INFO @ Sat, 15 Sep 2018 10:48:00: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:48:00: 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 10:48:00: Process for pairing-model is terminated! cat: SRX2771771.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2771771.10_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 `SRX2771771.05_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 `SRX2771771.05_*.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 `SRX2771771.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2771771.10_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 `SRX2771771.10_*.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 `SRX2771771.10_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。