Job ID = 9302943 sra ファイルのダウンロード中... Completed: 790622K bytes transferred in 17 seconds (377470K 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: PAIRED fastq に変換中... Written 14670495 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961325/SRR5761574.sra Written 14670495 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: 00:10:32 14670495 reads; of these: 14670495 (100.00%) were paired; of these: 1152075 (7.85%) aligned concordantly 0 times 11673371 (79.57%) aligned concordantly exactly 1 time 1845049 (12.58%) aligned concordantly >1 times ---- 1152075 pairs aligned concordantly 0 times; of these: 88018 (7.64%) aligned discordantly 1 time ---- 1064057 pairs aligned 0 times concordantly or discordantly; of these: 2128114 mates make up the pairs; of these: 1817239 (85.39%) aligned 0 times 186922 (8.78%) aligned exactly 1 time 123953 (5.82%) aligned >1 times 93.81% overall alignment rate Time searching: 00:10:32 Overall time: 00:10:32 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] 1958604 / 13538523 = 0.1447 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 @ Fri, 28 Jul 2017 11:53:20: # Command line: callpeak -t SRX2961325.bam -f BAM -g 12100000 -n SRX2961325.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2961325.05 # format = BAM # ChIP-seq file = ['SRX2961325.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 @ Fri, 28 Jul 2017 11:53:20: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:53:20: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:53:20: # Command line: callpeak -t SRX2961325.bam -f BAM -g 12100000 -n SRX2961325.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2961325.20 # format = BAM # ChIP-seq file = ['SRX2961325.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 @ Fri, 28 Jul 2017 11:53:20: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:53:20: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:53:20: # Command line: callpeak -t SRX2961325.bam -f BAM -g 12100000 -n SRX2961325.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2961325.10 # format = BAM # ChIP-seq file = ['SRX2961325.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 @ Fri, 28 Jul 2017 11:53:20: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:53:20: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:53:26: 1000000 INFO @ Fri, 28 Jul 2017 11:53:26: 1000000 INFO @ Fri, 28 Jul 2017 11:53:28: 1000000 INFO @ Fri, 28 Jul 2017 11:53:33: 2000000 INFO @ Fri, 28 Jul 2017 11:53:33: 2000000 INFO @ Fri, 28 Jul 2017 11:53:35: 2000000 INFO @ Fri, 28 Jul 2017 11:53:39: 3000000 INFO @ Fri, 28 Jul 2017 11:53:39: 3000000 INFO @ Fri, 28 Jul 2017 11:53:42: 3000000 INFO @ Fri, 28 Jul 2017 11:53:45: 4000000 INFO @ Fri, 28 Jul 2017 11:53:45: 4000000 INFO @ Fri, 28 Jul 2017 11:53:49: 4000000 INFO @ Fri, 28 Jul 2017 11:53:51: 5000000 INFO @ Fri, 28 Jul 2017 11:53:51: 5000000 INFO @ Fri, 28 Jul 2017 11:53:57: 5000000 INFO @ Fri, 28 Jul 2017 11:53:57: 6000000 INFO @ Fri, 28 Jul 2017 11:53:57: 6000000 INFO @ Fri, 28 Jul 2017 11:54:04: 7000000 INFO @ Fri, 28 Jul 2017 11:54:04: 7000000 INFO @ Fri, 28 Jul 2017 11:54:04: 6000000 INFO @ Fri, 28 Jul 2017 11:54:10: 8000000 INFO @ Fri, 28 Jul 2017 11:54:10: 8000000 INFO @ Fri, 28 Jul 2017 11:54:12: 7000000 INFO @ Fri, 28 Jul 2017 11:54:16: 9000000 INFO @ Fri, 28 Jul 2017 11:54:19: 9000000 INFO @ Fri, 28 Jul 2017 11:54:20: 8000000 INFO @ Fri, 28 Jul 2017 11:54:22: 10000000 INFO @ Fri, 28 Jul 2017 11:54:27: 9000000 INFO @ Fri, 28 Jul 2017 11:54:28: 10000000 INFO @ Fri, 28 Jul 2017 11:54:28: 11000000 INFO @ Fri, 28 Jul 2017 11:54:34: 12000000 INFO @ Fri, 28 Jul 2017 11:54:35: 10000000 INFO @ Fri, 28 Jul 2017 11:54:37: 11000000 INFO @ Fri, 28 Jul 2017 11:54:40: 13000000 INFO @ Fri, 28 Jul 2017 11:54:43: 11000000 INFO @ Fri, 28 Jul 2017 11:54:45: 12000000 INFO @ Fri, 28 Jul 2017 11:54:46: 14000000 INFO @ Fri, 28 Jul 2017 11:54:50: 12000000 INFO @ Fri, 28 Jul 2017 11:54:52: 15000000 INFO @ Fri, 28 Jul 2017 11:54:54: 13000000 INFO @ Fri, 28 Jul 2017 11:54:58: 13000000 INFO @ Fri, 28 Jul 2017 11:54:58: 16000000 INFO @ Fri, 28 Jul 2017 11:55:03: 14000000 INFO @ Fri, 28 Jul 2017 11:55:04: 17000000 INFO @ Fri, 28 Jul 2017 11:55:06: 14000000 INFO @ Fri, 28 Jul 2017 11:55:10: 18000000 INFO @ Fri, 28 Jul 2017 11:55:12: 15000000 INFO @ Fri, 28 Jul 2017 11:55:14: 15000000 INFO @ Fri, 28 Jul 2017 11:55:16: 19000000 INFO @ Fri, 28 Jul 2017 11:55:21: 16000000 INFO @ Fri, 28 Jul 2017 11:55:21: 16000000 INFO @ Fri, 28 Jul 2017 11:55:22: 20000000 INFO @ Fri, 28 Jul 2017 11:55:28: 21000000 INFO @ Fri, 28 Jul 2017 11:55:29: 17000000 INFO @ Fri, 28 Jul 2017 11:55:29: 17000000 INFO @ Fri, 28 Jul 2017 11:55:34: 22000000 INFO @ Fri, 28 Jul 2017 11:55:37: 18000000 INFO @ Fri, 28 Jul 2017 11:55:38: 18000000 INFO @ Fri, 28 Jul 2017 11:55:40: 23000000 INFO @ Fri, 28 Jul 2017 11:55:44: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:55:44: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:55:44: #1 total tags in treatment: 11560923 INFO @ Fri, 28 Jul 2017 11:55:44: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:55:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:55:44: #1 tags after filtering in treatment: 5738203 INFO @ Fri, 28 Jul 2017 11:55:44: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 28 Jul 2017 11:55:44: #1 finished! INFO @ Fri, 28 Jul 2017 11:55:44: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:55:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:55:45: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:55:45: 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 @ Fri, 28 Jul 2017 11:55:45: Process for pairing-model is terminated! cat: SRX2961325.20_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 `SRX2961325.20_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 `SRX2961325.20_*.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 `SRX2961325.20_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 @ Fri, 28 Jul 2017 11:55:45: 19000000 INFO @ Fri, 28 Jul 2017 11:55:48: 19000000 INFO @ Fri, 28 Jul 2017 11:55:54: 20000000 INFO @ Fri, 28 Jul 2017 11:55:57: 20000000 INFO @ Fri, 28 Jul 2017 11:56:02: 21000000 INFO @ Fri, 28 Jul 2017 11:56:06: 21000000 INFO @ Fri, 28 Jul 2017 11:56:10: 22000000 INFO @ Fri, 28 Jul 2017 11:56:15: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 28 Jul 2017 11:56:18: 23000000 INFO @ Fri, 28 Jul 2017 11:56:23: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:56:23: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:56:23: #1 total tags in treatment: 11560923 INFO @ Fri, 28 Jul 2017 11:56:23: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:56:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:56:23: #1 tags after filtering in treatment: 5738203 INFO @ Fri, 28 Jul 2017 11:56:23: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 28 Jul 2017 11:56:23: #1 finished! INFO @ Fri, 28 Jul 2017 11:56:23: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:56:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:56:24: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:56:24: 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 @ Fri, 28 Jul 2017 11:56:24: Process for pairing-model is terminated! cat: SRX2961325.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Fri, 28 Jul 2017 11:56:24: 23000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2961325.10_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 `SRX2961325.10_*.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 `SRX2961325.10_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 @ Fri, 28 Jul 2017 11:56:29: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:56:29: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:56:29: #1 total tags in treatment: 11560923 INFO @ Fri, 28 Jul 2017 11:56:29: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:56:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:56:29: #1 tags after filtering in treatment: 5738203 INFO @ Fri, 28 Jul 2017 11:56:29: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 28 Jul 2017 11:56:29: #1 finished! INFO @ Fri, 28 Jul 2017 11:56:29: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:56:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:56:29: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:56:29: 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 @ Fri, 28 Jul 2017 11:56:29: Process for pairing-model is terminated! cat: SRX2961325.05_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 `SRX2961325.05_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 `SRX2961325.05_*.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 `SRX2961325.05_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 BigWig に変換しました。