Job ID = 10536473 sra ファイルのダウンロード中... Completed: 1399696K bytes transferred in 25 seconds (458305K 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 36234375 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671172/SRR6696924.sra Written 36234375 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: 00:19:37 36234375 reads; of these: 36234375 (100.00%) were paired; of these: 12949352 (35.74%) aligned concordantly 0 times 20444481 (56.42%) aligned concordantly exactly 1 time 2840542 (7.84%) aligned concordantly >1 times ---- 12949352 pairs aligned concordantly 0 times; of these: 28652 (0.22%) aligned discordantly 1 time ---- 12920700 pairs aligned 0 times concordantly or discordantly; of these: 25841400 mates make up the pairs; of these: 25631894 (99.19%) aligned 0 times 169636 (0.66%) aligned exactly 1 time 39870 (0.15%) aligned >1 times 64.63% overall alignment rate Time searching: 00:19:37 Overall time: 00:19:37 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 20 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] 7014974 / 23295572 = 0.3011 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 10:14:51: # Command line: callpeak -t SRX3671172.bam -f BAM -g 12100000 -n SRX3671172.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671172.05 # format = BAM # ChIP-seq file = ['SRX3671172.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 10:14:51: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:14:51: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:14:51: # Command line: callpeak -t SRX3671172.bam -f BAM -g 12100000 -n SRX3671172.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671172.20 # format = BAM # ChIP-seq file = ['SRX3671172.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 10:14:51: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:14:51: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:14:51: # Command line: callpeak -t SRX3671172.bam -f BAM -g 12100000 -n SRX3671172.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671172.10 # format = BAM # ChIP-seq file = ['SRX3671172.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 10:14:51: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:14:51: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:14:56: 1000000 INFO @ Thu, 05 Apr 2018 10:14:57: 1000000 INFO @ Thu, 05 Apr 2018 10:14:57: 1000000 INFO @ Thu, 05 Apr 2018 10:15:02: 2000000 INFO @ Thu, 05 Apr 2018 10:15:03: 2000000 INFO @ Thu, 05 Apr 2018 10:15:03: 2000000 INFO @ Thu, 05 Apr 2018 10:15:07: 3000000 INFO @ Thu, 05 Apr 2018 10:15:09: 3000000 INFO @ Thu, 05 Apr 2018 10:15:09: 3000000 INFO @ Thu, 05 Apr 2018 10:15:12: 4000000 INFO @ Thu, 05 Apr 2018 10:15:15: 4000000 INFO @ Thu, 05 Apr 2018 10:15:15: 4000000 INFO @ Thu, 05 Apr 2018 10:15:18: 5000000 INFO @ Thu, 05 Apr 2018 10:15:21: 5000000 INFO @ Thu, 05 Apr 2018 10:15:22: 5000000 INFO @ Thu, 05 Apr 2018 10:15:23: 6000000 INFO @ Thu, 05 Apr 2018 10:15:28: 6000000 INFO @ Thu, 05 Apr 2018 10:15:28: 6000000 INFO @ Thu, 05 Apr 2018 10:15:28: 7000000 INFO @ Thu, 05 Apr 2018 10:15:34: 7000000 INFO @ Thu, 05 Apr 2018 10:15:34: 8000000 INFO @ Thu, 05 Apr 2018 10:15:34: 7000000 INFO @ Thu, 05 Apr 2018 10:15:39: 9000000 INFO @ Thu, 05 Apr 2018 10:15:40: 8000000 INFO @ Thu, 05 Apr 2018 10:15:40: 8000000 INFO @ Thu, 05 Apr 2018 10:15:45: 10000000 INFO @ Thu, 05 Apr 2018 10:15:46: 9000000 INFO @ Thu, 05 Apr 2018 10:15:47: 9000000 INFO @ Thu, 05 Apr 2018 10:15:50: 11000000 INFO @ Thu, 05 Apr 2018 10:15:53: 10000000 INFO @ Thu, 05 Apr 2018 10:15:53: 10000000 INFO @ Thu, 05 Apr 2018 10:15:55: 12000000 INFO @ Thu, 05 Apr 2018 10:15:59: 11000000 INFO @ Thu, 05 Apr 2018 10:15:59: 11000000 INFO @ Thu, 05 Apr 2018 10:16:01: 13000000 INFO @ Thu, 05 Apr 2018 10:16:05: 12000000 INFO @ Thu, 05 Apr 2018 10:16:06: 12000000 INFO @ Thu, 05 Apr 2018 10:16:06: 14000000 INFO @ Thu, 05 Apr 2018 10:16:12: 15000000 INFO @ Thu, 05 Apr 2018 10:16:12: 13000000 INFO @ Thu, 05 Apr 2018 10:16:13: 13000000 INFO @ Thu, 05 Apr 2018 10:16:17: 16000000 INFO @ Thu, 05 Apr 2018 10:16:18: 14000000 INFO @ Thu, 05 Apr 2018 10:16:19: 14000000 INFO @ Thu, 05 Apr 2018 10:16:22: 17000000 INFO @ Thu, 05 Apr 2018 10:16:25: 15000000 INFO @ Thu, 05 Apr 2018 10:16:26: 15000000 INFO @ Thu, 05 Apr 2018 10:16:28: 18000000 INFO @ Thu, 05 Apr 2018 10:16:31: 16000000 INFO @ Thu, 05 Apr 2018 10:16:33: 16000000 INFO @ Thu, 05 Apr 2018 10:16:33: 19000000 INFO @ Thu, 05 Apr 2018 10:16:38: 17000000 INFO @ Thu, 05 Apr 2018 10:16:38: 20000000 INFO @ Thu, 05 Apr 2018 10:16:40: 17000000 INFO @ Thu, 05 Apr 2018 10:16:44: 21000000 INFO @ Thu, 05 Apr 2018 10:16:45: 18000000 INFO @ Thu, 05 Apr 2018 10:16:46: 18000000 INFO @ Thu, 05 Apr 2018 10:16:49: 22000000 INFO @ Thu, 05 Apr 2018 10:16:51: 19000000 INFO @ Thu, 05 Apr 2018 10:16:53: 19000000 INFO @ Thu, 05 Apr 2018 10:16:55: 23000000 INFO @ Thu, 05 Apr 2018 10:16:58: 20000000 INFO @ Thu, 05 Apr 2018 10:17:00: 20000000 INFO @ Thu, 05 Apr 2018 10:17:00: 24000000 INFO @ Thu, 05 Apr 2018 10:17:04: 21000000 INFO @ Thu, 05 Apr 2018 10:17:05: 25000000 INFO @ Thu, 05 Apr 2018 10:17:06: 21000000 INFO @ Thu, 05 Apr 2018 10:17:11: 22000000 INFO @ Thu, 05 Apr 2018 10:17:11: 26000000 INFO @ Thu, 05 Apr 2018 10:17:13: 22000000 INFO @ Thu, 05 Apr 2018 10:17:16: 27000000 INFO @ Thu, 05 Apr 2018 10:17:17: 23000000 INFO @ Thu, 05 Apr 2018 10:17:20: 23000000 INFO @ Thu, 05 Apr 2018 10:17:22: 28000000 INFO @ Thu, 05 Apr 2018 10:17:24: 24000000 INFO @ Thu, 05 Apr 2018 10:17:26: 24000000 INFO @ Thu, 05 Apr 2018 10:17:27: 29000000 INFO @ Thu, 05 Apr 2018 10:17:30: 25000000 INFO @ Thu, 05 Apr 2018 10:17:32: 30000000 INFO @ Thu, 05 Apr 2018 10:17:33: 25000000 INFO @ Thu, 05 Apr 2018 10:17:37: 26000000 INFO @ Thu, 05 Apr 2018 10:17:38: 31000000 INFO @ Thu, 05 Apr 2018 10:17:40: 26000000 INFO @ Thu, 05 Apr 2018 10:17:43: 32000000 INFO @ Thu, 05 Apr 2018 10:17:43: 27000000 INFO @ Thu, 05 Apr 2018 10:17:46: 27000000 INFO @ Thu, 05 Apr 2018 10:17:48: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:17:48: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:17:48: #1 total tags in treatment: 16273473 INFO @ Thu, 05 Apr 2018 10:17:48: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:17:48: #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 10:17:48: #1 tags after filtering in treatment: 10752055 INFO @ Thu, 05 Apr 2018 10:17:48: #1 Redundant rate of treatment: 0.34 INFO @ Thu, 05 Apr 2018 10:17:48: #1 finished! INFO @ Thu, 05 Apr 2018 10:17:48: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:17:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:17:49: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:17:49: 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 10:17:49: Process for pairing-model is terminated! cat: SRX3671172.05_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 `SRX3671172.05_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 `SRX3671172.05_*.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 `SRX3671172.05_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 @ Thu, 05 Apr 2018 10:17:50: 28000000 INFO @ Thu, 05 Apr 2018 10:17:53: 28000000 INFO @ Thu, 05 Apr 2018 10:17:55: 29000000 INFO @ Thu, 05 Apr 2018 10:17:59: 29000000 INFO @ Thu, 05 Apr 2018 10:18:01: 30000000 INFO @ Thu, 05 Apr 2018 10:18:04: 30000000 INFO @ Thu, 05 Apr 2018 10:18:06: 31000000 INFO @ Thu, 05 Apr 2018 10:18:10: 31000000 INFO @ Thu, 05 Apr 2018 10:18:12: 32000000 INFO @ Thu, 05 Apr 2018 10:18:16: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:18:16: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:18:16: #1 total tags in treatment: 16273473 INFO @ Thu, 05 Apr 2018 10:18:16: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:18:16: #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 10:18:16: 32000000 INFO @ Thu, 05 Apr 2018 10:18:17: #1 tags after filtering in treatment: 10752055 INFO @ Thu, 05 Apr 2018 10:18:17: #1 Redundant rate of treatment: 0.34 INFO @ Thu, 05 Apr 2018 10:18:17: #1 finished! INFO @ Thu, 05 Apr 2018 10:18:17: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:18:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:18:17: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:18:17: 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 10:18:17: Process for pairing-model is terminated! cat: SRX3671172.20_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 `SRX3671172.20_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 `SRX3671172.20_*.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 `SRX3671172.20_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 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 05 Apr 2018 10:18:21: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:18:21: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:18:21: #1 total tags in treatment: 16273473 INFO @ Thu, 05 Apr 2018 10:18:21: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:18:21: #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 10:18:22: #1 tags after filtering in treatment: 10752055 INFO @ Thu, 05 Apr 2018 10:18:22: #1 Redundant rate of treatment: 0.34 INFO @ Thu, 05 Apr 2018 10:18:22: #1 finished! INFO @ Thu, 05 Apr 2018 10:18:22: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:18:22: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:18:22: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:18:22: 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 10:18:22: Process for pairing-model is terminated! cat: SRX3671172.10_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 `SRX3671172.10_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 `SRX3671172.10_*.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 `SRX3671172.10_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 BigWig に変換しました。