Job ID = 9302964 sra ファイルのダウンロード中... Completed: 826923K bytes transferred in 20 seconds (329787K 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 15269293 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961328/SRR5761577.sra Written 15269293 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: 00:11:57 15269293 reads; of these: 15269293 (100.00%) were paired; of these: 899316 (5.89%) aligned concordantly 0 times 13208092 (86.50%) aligned concordantly exactly 1 time 1161885 (7.61%) aligned concordantly >1 times ---- 899316 pairs aligned concordantly 0 times; of these: 108529 (12.07%) aligned discordantly 1 time ---- 790787 pairs aligned 0 times concordantly or discordantly; of these: 1581574 mates make up the pairs; of these: 1293021 (81.76%) aligned 0 times 187595 (11.86%) aligned exactly 1 time 100958 (6.38%) aligned >1 times 95.77% overall alignment rate Time searching: 00:11:57 Overall time: 00:11:57 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] 2035243 / 14386152 = 0.1415 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 11:59:05: # Command line: callpeak -t SRX2961328.bam -f BAM -g 12100000 -n SRX2961328.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2961328.10 # format = BAM # ChIP-seq file = ['SRX2961328.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 11:59:05: # Command line: callpeak -t SRX2961328.bam -f BAM -g 12100000 -n SRX2961328.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2961328.20 # format = BAM # ChIP-seq file = ['SRX2961328.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 11:59:05: # Command line: callpeak -t SRX2961328.bam -f BAM -g 12100000 -n SRX2961328.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2961328.05 # format = BAM # ChIP-seq file = ['SRX2961328.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 11:59:05: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:59:05: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:59:05: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:59:05: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:59:05: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:59:05: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:59:12: 1000000 INFO @ Fri, 28 Jul 2017 11:59:13: 1000000 INFO @ Fri, 28 Jul 2017 11:59:13: 1000000 INFO @ Fri, 28 Jul 2017 11:59:18: 2000000 INFO @ Fri, 28 Jul 2017 11:59:20: 2000000 INFO @ Fri, 28 Jul 2017 11:59:20: 2000000 INFO @ Fri, 28 Jul 2017 11:59:25: 3000000 INFO @ Fri, 28 Jul 2017 11:59:28: 3000000 INFO @ Fri, 28 Jul 2017 11:59:28: 3000000 INFO @ Fri, 28 Jul 2017 11:59:32: 4000000 INFO @ Fri, 28 Jul 2017 11:59:35: 4000000 INFO @ Fri, 28 Jul 2017 11:59:35: 4000000 INFO @ Fri, 28 Jul 2017 11:59:38: 5000000 INFO @ Fri, 28 Jul 2017 11:59:42: 5000000 INFO @ Fri, 28 Jul 2017 11:59:42: 5000000 INFO @ Fri, 28 Jul 2017 11:59:45: 6000000 INFO @ Fri, 28 Jul 2017 11:59:50: 6000000 INFO @ Fri, 28 Jul 2017 11:59:50: 6000000 INFO @ Fri, 28 Jul 2017 11:59:51: 7000000 INFO @ Fri, 28 Jul 2017 11:59:57: 7000000 INFO @ Fri, 28 Jul 2017 11:59:57: 7000000 INFO @ Fri, 28 Jul 2017 11:59:58: 8000000 INFO @ Fri, 28 Jul 2017 12:00:04: 9000000 INFO @ Fri, 28 Jul 2017 12:00:05: 8000000 INFO @ Fri, 28 Jul 2017 12:00:05: 8000000 INFO @ Fri, 28 Jul 2017 12:00:11: 10000000 INFO @ Fri, 28 Jul 2017 12:00:12: 9000000 INFO @ Fri, 28 Jul 2017 12:00:12: 9000000 INFO @ Fri, 28 Jul 2017 12:00:18: 11000000 INFO @ Fri, 28 Jul 2017 12:00:20: 10000000 INFO @ Fri, 28 Jul 2017 12:00:20: 10000000 INFO @ Fri, 28 Jul 2017 12:00:25: 12000000 INFO @ Fri, 28 Jul 2017 12:00:27: 11000000 INFO @ Fri, 28 Jul 2017 12:00:27: 11000000 INFO @ Fri, 28 Jul 2017 12:00:31: 13000000 INFO @ Fri, 28 Jul 2017 12:00:35: 12000000 INFO @ Fri, 28 Jul 2017 12:00:35: 12000000 INFO @ Fri, 28 Jul 2017 12:00:38: 14000000 INFO @ Fri, 28 Jul 2017 12:00:42: 13000000 INFO @ Fri, 28 Jul 2017 12:00:42: 13000000 INFO @ Fri, 28 Jul 2017 12:00:45: 15000000 INFO @ Fri, 28 Jul 2017 12:00:50: 14000000 INFO @ Fri, 28 Jul 2017 12:00:50: 14000000 INFO @ Fri, 28 Jul 2017 12:00:53: 16000000 INFO @ Fri, 28 Jul 2017 12:00:57: 15000000 INFO @ Fri, 28 Jul 2017 12:00:58: 15000000 INFO @ Fri, 28 Jul 2017 12:01:00: 17000000 INFO @ Fri, 28 Jul 2017 12:01:04: 16000000 INFO @ Fri, 28 Jul 2017 12:01:06: 16000000 INFO @ Fri, 28 Jul 2017 12:01:08: 18000000 INFO @ Fri, 28 Jul 2017 12:01:11: 17000000 INFO @ Fri, 28 Jul 2017 12:01:14: 17000000 INFO @ Fri, 28 Jul 2017 12:01:15: 19000000 INFO @ Fri, 28 Jul 2017 12:01:18: 18000000 INFO @ Fri, 28 Jul 2017 12:01:22: 18000000 INFO @ Fri, 28 Jul 2017 12:01:23: 20000000 INFO @ Fri, 28 Jul 2017 12:01:26: 19000000 INFO @ Fri, 28 Jul 2017 12:01:30: 21000000 INFO @ Fri, 28 Jul 2017 12:01:30: 19000000 INFO @ Fri, 28 Jul 2017 12:01:33: 20000000 INFO @ Fri, 28 Jul 2017 12:01:37: 22000000 INFO @ Fri, 28 Jul 2017 12:01:38: 20000000 INFO @ Fri, 28 Jul 2017 12:01:39: 21000000 INFO @ Fri, 28 Jul 2017 12:01:45: 23000000 INFO @ Fri, 28 Jul 2017 12:01:46: 21000000 INFO @ Fri, 28 Jul 2017 12:01:47: 22000000 INFO @ Fri, 28 Jul 2017 12:01:52: 24000000 INFO @ Fri, 28 Jul 2017 12:01:54: 22000000 INFO @ Fri, 28 Jul 2017 12:01:54: 23000000 INFO @ Fri, 28 Jul 2017 12:02:00: 25000000 INFO @ Fri, 28 Jul 2017 12:02:01: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:02:01: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:02:01: #1 total tags in treatment: 12335251 INFO @ Fri, 28 Jul 2017 12:02:01: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:02:01: #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 12:02:01: 24000000 INFO @ Fri, 28 Jul 2017 12:02:01: #1 tags after filtering in treatment: 5789085 INFO @ Fri, 28 Jul 2017 12:02:01: #1 Redundant rate of treatment: 0.53 INFO @ Fri, 28 Jul 2017 12:02:01: #1 finished! INFO @ Fri, 28 Jul 2017 12:02:01: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:02:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:02:02: 23000000 INFO @ Fri, 28 Jul 2017 12:02:02: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:02:02: 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 12:02:02: Process for pairing-model is terminated! cat: SRX2961328.05_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 `SRX2961328.05_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 `SRX2961328.05_*.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 `SRX2961328.05_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 @ Fri, 28 Jul 2017 12:02:08: 25000000 INFO @ Fri, 28 Jul 2017 12:02:08: 24000000 INFO @ Fri, 28 Jul 2017 12:02:09: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:02:09: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:02:09: #1 total tags in treatment: 12335251 INFO @ Fri, 28 Jul 2017 12:02:09: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:02:09: #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 12:02:09: #1 tags after filtering in treatment: 5789085 INFO @ Fri, 28 Jul 2017 12:02:09: #1 Redundant rate of treatment: 0.53 INFO @ Fri, 28 Jul 2017 12:02:09: #1 finished! INFO @ Fri, 28 Jul 2017 12:02:09: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:02:09: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 28 Jul 2017 12:02:10: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:02:10: 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 12:02:10: Process for pairing-model is terminated! cat: SRX2961328.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2961328.10_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 `SRX2961328.10_*.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 `SRX2961328.10_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 12:02:15: 25000000 INFO @ Fri, 28 Jul 2017 12:02:16: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 12:02:16: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 12:02:16: #1 total tags in treatment: 12335251 INFO @ Fri, 28 Jul 2017 12:02:16: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 12:02:16: #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 12:02:16: #1 tags after filtering in treatment: 5789085 INFO @ Fri, 28 Jul 2017 12:02:16: #1 Redundant rate of treatment: 0.53 INFO @ Fri, 28 Jul 2017 12:02:16: #1 finished! INFO @ Fri, 28 Jul 2017 12:02:16: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 12:02:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 12:02:16: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 12:02:16: 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 12:02:16: Process for pairing-model is terminated! cat: SRX2961328.20_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 `SRX2961328.20_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 `SRX2961328.20_*.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 `SRX2961328.20_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。