Job ID = 10536482 sra ファイルのダウンロード中... Completed: 1470202K bytes transferred in 27 seconds (437075K 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... Written 33794930 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671178/SRR6696930.sra Written 33794930 spots total 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: 00:25:56 33794930 reads; of these: 33794930 (100.00%) were paired; of these: 2802142 (8.29%) aligned concordantly 0 times 27264803 (80.68%) aligned concordantly exactly 1 time 3727985 (11.03%) aligned concordantly >1 times ---- 2802142 pairs aligned concordantly 0 times; of these: 67454 (2.41%) aligned discordantly 1 time ---- 2734688 pairs aligned 0 times concordantly or discordantly; of these: 5469376 mates make up the pairs; of these: 5169228 (94.51%) aligned 0 times 235685 (4.31%) aligned exactly 1 time 64463 (1.18%) aligned >1 times 92.35% overall alignment rate Time searching: 00:25:56 Overall time: 00:25:56 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 28 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] 17573829 / 31020419 = 0.5665 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 @ Thu, 05 Apr 2018 10:12:00: # Command line: callpeak -t SRX3671178.bam -f BAM -g 12100000 -n SRX3671178.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671178.10 # format = BAM # ChIP-seq file = ['SRX3671178.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 @ Thu, 05 Apr 2018 10:12:00: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:12:00: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:12:00: # Command line: callpeak -t SRX3671178.bam -f BAM -g 12100000 -n SRX3671178.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671178.05 # format = BAM # ChIP-seq file = ['SRX3671178.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 @ Thu, 05 Apr 2018 10:12:00: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:12:00: # Command line: callpeak -t SRX3671178.bam -f BAM -g 12100000 -n SRX3671178.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671178.20 # format = BAM # ChIP-seq file = ['SRX3671178.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 @ Thu, 05 Apr 2018 10:12:00: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:12:00: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:12:00: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:12:06: 1000000 INFO @ Thu, 05 Apr 2018 10:12:07: 1000000 INFO @ Thu, 05 Apr 2018 10:12:07: 1000000 INFO @ Thu, 05 Apr 2018 10:12:12: 2000000 INFO @ Thu, 05 Apr 2018 10:12:14: 2000000 INFO @ Thu, 05 Apr 2018 10:12:14: 2000000 INFO @ Thu, 05 Apr 2018 10:12:18: 3000000 INFO @ Thu, 05 Apr 2018 10:12:20: 3000000 INFO @ Thu, 05 Apr 2018 10:12:20: 3000000 INFO @ Thu, 05 Apr 2018 10:12:25: 4000000 INFO @ Thu, 05 Apr 2018 10:12:27: 4000000 INFO @ Thu, 05 Apr 2018 10:12:27: 4000000 INFO @ Thu, 05 Apr 2018 10:12:31: 5000000 INFO @ Thu, 05 Apr 2018 10:12:33: 5000000 INFO @ Thu, 05 Apr 2018 10:12:33: 5000000 INFO @ Thu, 05 Apr 2018 10:12:37: 6000000 INFO @ Thu, 05 Apr 2018 10:12:40: 6000000 INFO @ Thu, 05 Apr 2018 10:12:40: 6000000 INFO @ Thu, 05 Apr 2018 10:12:43: 7000000 INFO @ Thu, 05 Apr 2018 10:12:47: 7000000 INFO @ Thu, 05 Apr 2018 10:12:47: 7000000 INFO @ Thu, 05 Apr 2018 10:12:50: 8000000 INFO @ Thu, 05 Apr 2018 10:12:54: 8000000 INFO @ Thu, 05 Apr 2018 10:12:54: 8000000 INFO @ Thu, 05 Apr 2018 10:12:56: 9000000 INFO @ Thu, 05 Apr 2018 10:13:00: 9000000 INFO @ Thu, 05 Apr 2018 10:13:00: 9000000 INFO @ Thu, 05 Apr 2018 10:13:02: 10000000 INFO @ Thu, 05 Apr 2018 10:13:07: 10000000 INFO @ Thu, 05 Apr 2018 10:13:07: 10000000 INFO @ Thu, 05 Apr 2018 10:13:08: 11000000 INFO @ Thu, 05 Apr 2018 10:13:13: 11000000 INFO @ Thu, 05 Apr 2018 10:13:14: 11000000 INFO @ Thu, 05 Apr 2018 10:13:14: 12000000 INFO @ Thu, 05 Apr 2018 10:13:20: 12000000 INFO @ Thu, 05 Apr 2018 10:13:20: 12000000 INFO @ Thu, 05 Apr 2018 10:13:20: 13000000 INFO @ Thu, 05 Apr 2018 10:13:27: 14000000 INFO @ Thu, 05 Apr 2018 10:13:27: 13000000 INFO @ Thu, 05 Apr 2018 10:13:27: 13000000 INFO @ Thu, 05 Apr 2018 10:13:33: 15000000 INFO @ Thu, 05 Apr 2018 10:13:34: 14000000 INFO @ Thu, 05 Apr 2018 10:13:34: 14000000 INFO @ Thu, 05 Apr 2018 10:13:39: 16000000 INFO @ Thu, 05 Apr 2018 10:13:41: 15000000 INFO @ Thu, 05 Apr 2018 10:13:41: 15000000 INFO @ Thu, 05 Apr 2018 10:13:45: 17000000 INFO @ Thu, 05 Apr 2018 10:13:48: 16000000 INFO @ Thu, 05 Apr 2018 10:13:48: 16000000 INFO @ Thu, 05 Apr 2018 10:13:51: 18000000 INFO @ Thu, 05 Apr 2018 10:13:55: 17000000 INFO @ Thu, 05 Apr 2018 10:13:55: 17000000 INFO @ Thu, 05 Apr 2018 10:13:57: 19000000 INFO @ Thu, 05 Apr 2018 10:14:01: 18000000 INFO @ Thu, 05 Apr 2018 10:14:01: 18000000 INFO @ Thu, 05 Apr 2018 10:14:04: 20000000 INFO @ Thu, 05 Apr 2018 10:14:08: 19000000 INFO @ Thu, 05 Apr 2018 10:14:08: 19000000 INFO @ Thu, 05 Apr 2018 10:14:10: 21000000 INFO @ Thu, 05 Apr 2018 10:14:15: 20000000 INFO @ Thu, 05 Apr 2018 10:14:15: 20000000 INFO @ Thu, 05 Apr 2018 10:14:16: 22000000 INFO @ Thu, 05 Apr 2018 10:14:22: 21000000 INFO @ Thu, 05 Apr 2018 10:14:22: 21000000 INFO @ Thu, 05 Apr 2018 10:14:22: 23000000 INFO @ Thu, 05 Apr 2018 10:14:28: 24000000 INFO @ Thu, 05 Apr 2018 10:14:28: 22000000 INFO @ Thu, 05 Apr 2018 10:14:29: 22000000 INFO @ Thu, 05 Apr 2018 10:14:35: 25000000 INFO @ Thu, 05 Apr 2018 10:14:35: 23000000 INFO @ Thu, 05 Apr 2018 10:14:35: 23000000 INFO @ Thu, 05 Apr 2018 10:14:41: 26000000 INFO @ Thu, 05 Apr 2018 10:14:42: 24000000 INFO @ Thu, 05 Apr 2018 10:14:42: 24000000 INFO @ Thu, 05 Apr 2018 10:14:47: 27000000 INFO @ Thu, 05 Apr 2018 10:14:49: 25000000 INFO @ Thu, 05 Apr 2018 10:14:49: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:14:49: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:14:49: #1 total tags in treatment: 13424311 INFO @ Thu, 05 Apr 2018 10:14:49: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:14:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:14:49: 25000000 INFO @ Thu, 05 Apr 2018 10:14:49: #1 tags after filtering in treatment: 9300025 INFO @ Thu, 05 Apr 2018 10:14:49: #1 Redundant rate of treatment: 0.31 INFO @ Thu, 05 Apr 2018 10:14:49: #1 finished! INFO @ Thu, 05 Apr 2018 10:14:49: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:14:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:14:50: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:14:50: 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 @ Thu, 05 Apr 2018 10:14:50: Process for pairing-model is terminated! cat: SRX3671178.10_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 `SRX3671178.10_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 `SRX3671178.10_*.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 `SRX3671178.10_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 @ Thu, 05 Apr 2018 10:14:55: 26000000 INFO @ Thu, 05 Apr 2018 10:14:56: 26000000 INFO @ Thu, 05 Apr 2018 10:15:02: 27000000 INFO @ Thu, 05 Apr 2018 10:15:02: 27000000 INFO @ Thu, 05 Apr 2018 10:15:03: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:15:03: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:15:03: #1 total tags in treatment: 13424311 INFO @ Thu, 05 Apr 2018 10:15:03: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:15:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:15:04: #1 tags after filtering in treatment: 9300025 INFO @ Thu, 05 Apr 2018 10:15:04: #1 Redundant rate of treatment: 0.31 INFO @ Thu, 05 Apr 2018 10:15:04: #1 finished! INFO @ Thu, 05 Apr 2018 10:15:04: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:15:04: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:15:04: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:15:04: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:15:04: #1 total tags in treatment: 13424311 INFO @ Thu, 05 Apr 2018 10:15:04: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:15:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:15:04: #1 tags after filtering in treatment: 9300025 INFO @ Thu, 05 Apr 2018 10:15:04: #1 Redundant rate of treatment: 0.31 INFO @ Thu, 05 Apr 2018 10:15:04: #1 finished! INFO @ Thu, 05 Apr 2018 10:15:04: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:15:04: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:15:04: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:15:04: 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 @ Thu, 05 Apr 2018 10:15:04: Process for pairing-model is terminated! cat: SRX3671178.20_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 `SRX3671178.20_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 `SRX3671178.20_*.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 `SRX3671178.20_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 @ Thu, 05 Apr 2018 10:15:04: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:15:04: 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 @ Thu, 05 Apr 2018 10:15:04: Process for pairing-model is terminated! cat: SRX3671178.05_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 `SRX3671178.05_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 `SRX3671178.05_*.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 `SRX3671178.05_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。