Job ID = 10536478 sra ファイルのダウンロード中... Completed: 1382188K bytes transferred in 54 seconds (208408K 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 35818685 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671175/SRR6696927.sra Written 35818685 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: 00:17:31 35818685 reads; of these: 35818685 (100.00%) were paired; of these: 15169968 (42.35%) aligned concordantly 0 times 18101194 (50.54%) aligned concordantly exactly 1 time 2547523 (7.11%) aligned concordantly >1 times ---- 15169968 pairs aligned concordantly 0 times; of these: 20413 (0.13%) aligned discordantly 1 time ---- 15149555 pairs aligned 0 times concordantly or discordantly; of these: 30299110 mates make up the pairs; of these: 30111597 (99.38%) aligned 0 times 154194 (0.51%) aligned exactly 1 time 33319 (0.11%) aligned >1 times 57.97% overall alignment rate Time searching: 00:17:31 Overall time: 00:17:31 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] 6677211 / 20658417 = 0.3232 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 10:00:18: # Command line: callpeak -t SRX3671175.bam -f BAM -g 12100000 -n SRX3671175.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671175.10 # format = BAM # ChIP-seq file = ['SRX3671175.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 10:00:18: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:00:18: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:00:18: # Command line: callpeak -t SRX3671175.bam -f BAM -g 12100000 -n SRX3671175.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671175.05 # format = BAM # ChIP-seq file = ['SRX3671175.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 10:00:18: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:00:18: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:00:18: # Command line: callpeak -t SRX3671175.bam -f BAM -g 12100000 -n SRX3671175.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671175.20 # format = BAM # ChIP-seq file = ['SRX3671175.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 10:00:18: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:00:18: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:00:24: 1000000 INFO @ Thu, 05 Apr 2018 10:00:24: 1000000 INFO @ Thu, 05 Apr 2018 10:00:24: 1000000 INFO @ Thu, 05 Apr 2018 10:00:31: 2000000 INFO @ Thu, 05 Apr 2018 10:00:31: 2000000 INFO @ Thu, 05 Apr 2018 10:00:31: 2000000 INFO @ Thu, 05 Apr 2018 10:00:37: 3000000 INFO @ Thu, 05 Apr 2018 10:00:38: 3000000 INFO @ Thu, 05 Apr 2018 10:00:38: 3000000 INFO @ Thu, 05 Apr 2018 10:00:43: 4000000 INFO @ Thu, 05 Apr 2018 10:00:44: 4000000 INFO @ Thu, 05 Apr 2018 10:00:44: 4000000 INFO @ Thu, 05 Apr 2018 10:00:50: 5000000 INFO @ Thu, 05 Apr 2018 10:00:51: 5000000 INFO @ Thu, 05 Apr 2018 10:00:51: 5000000 INFO @ Thu, 05 Apr 2018 10:00:56: 6000000 INFO @ Thu, 05 Apr 2018 10:00:57: 6000000 INFO @ Thu, 05 Apr 2018 10:00:57: 6000000 INFO @ Thu, 05 Apr 2018 10:01:02: 7000000 INFO @ Thu, 05 Apr 2018 10:01:04: 7000000 INFO @ Thu, 05 Apr 2018 10:01:04: 7000000 INFO @ Thu, 05 Apr 2018 10:01:09: 8000000 INFO @ Thu, 05 Apr 2018 10:01:10: 8000000 INFO @ Thu, 05 Apr 2018 10:01:10: 8000000 INFO @ Thu, 05 Apr 2018 10:01:15: 9000000 INFO @ Thu, 05 Apr 2018 10:01:16: 9000000 INFO @ Thu, 05 Apr 2018 10:01:16: 9000000 INFO @ Thu, 05 Apr 2018 10:01:21: 10000000 INFO @ Thu, 05 Apr 2018 10:01:23: 10000000 INFO @ Thu, 05 Apr 2018 10:01:23: 10000000 INFO @ Thu, 05 Apr 2018 10:01:28: 11000000 INFO @ Thu, 05 Apr 2018 10:01:29: 11000000 INFO @ Thu, 05 Apr 2018 10:01:29: 11000000 INFO @ Thu, 05 Apr 2018 10:01:34: 12000000 INFO @ Thu, 05 Apr 2018 10:01:36: 12000000 INFO @ Thu, 05 Apr 2018 10:01:36: 12000000 INFO @ Thu, 05 Apr 2018 10:01:40: 13000000 INFO @ Thu, 05 Apr 2018 10:01:43: 13000000 INFO @ Thu, 05 Apr 2018 10:01:43: 13000000 INFO @ Thu, 05 Apr 2018 10:01:46: 14000000 INFO @ Thu, 05 Apr 2018 10:01:49: 14000000 INFO @ Thu, 05 Apr 2018 10:01:49: 14000000 INFO @ Thu, 05 Apr 2018 10:01:53: 15000000 INFO @ Thu, 05 Apr 2018 10:01:55: 15000000 INFO @ Thu, 05 Apr 2018 10:01:56: 15000000 INFO @ Thu, 05 Apr 2018 10:01:59: 16000000 INFO @ Thu, 05 Apr 2018 10:02:02: 16000000 INFO @ Thu, 05 Apr 2018 10:02:02: 16000000 INFO @ Thu, 05 Apr 2018 10:02:05: 17000000 INFO @ Thu, 05 Apr 2018 10:02:08: 17000000 INFO @ Thu, 05 Apr 2018 10:02:08: 17000000 INFO @ Thu, 05 Apr 2018 10:02:12: 18000000 INFO @ Thu, 05 Apr 2018 10:02:15: 18000000 INFO @ Thu, 05 Apr 2018 10:02:15: 18000000 INFO @ Thu, 05 Apr 2018 10:02:18: 19000000 INFO @ Thu, 05 Apr 2018 10:02:21: 19000000 INFO @ Thu, 05 Apr 2018 10:02:21: 19000000 INFO @ Thu, 05 Apr 2018 10:02:24: 20000000 INFO @ Thu, 05 Apr 2018 10:02:28: 20000000 INFO @ Thu, 05 Apr 2018 10:02:28: 20000000 INFO @ Thu, 05 Apr 2018 10:02:31: 21000000 INFO @ Thu, 05 Apr 2018 10:02:34: 21000000 INFO @ Thu, 05 Apr 2018 10:02:34: 21000000 INFO @ Thu, 05 Apr 2018 10:02:37: 22000000 INFO @ Thu, 05 Apr 2018 10:02:40: 22000000 INFO @ Thu, 05 Apr 2018 10:02:40: 22000000 INFO @ Thu, 05 Apr 2018 10:02:43: 23000000 INFO @ Thu, 05 Apr 2018 10:02:47: 23000000 INFO @ Thu, 05 Apr 2018 10:02:47: 23000000 INFO @ Thu, 05 Apr 2018 10:02:50: 24000000 INFO @ Thu, 05 Apr 2018 10:02:53: 24000000 INFO @ Thu, 05 Apr 2018 10:02:53: 24000000 INFO @ Thu, 05 Apr 2018 10:02:56: 25000000 INFO @ Thu, 05 Apr 2018 10:03:00: 25000000 INFO @ Thu, 05 Apr 2018 10:03:00: 25000000 INFO @ Thu, 05 Apr 2018 10:03:02: 26000000 INFO @ Thu, 05 Apr 2018 10:03:06: 26000000 INFO @ Thu, 05 Apr 2018 10:03:06: 26000000 INFO @ Thu, 05 Apr 2018 10:03:09: 27000000 INFO @ Thu, 05 Apr 2018 10:03:13: 27000000 INFO @ Thu, 05 Apr 2018 10:03:13: 27000000 INFO @ Thu, 05 Apr 2018 10:03:15: 28000000 INFO @ Thu, 05 Apr 2018 10:03:16: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:03:16: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:03:16: #1 total tags in treatment: 13974481 INFO @ Thu, 05 Apr 2018 10:03:16: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:03:16: #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 10:03:16: #1 tags after filtering in treatment: 9672310 INFO @ Thu, 05 Apr 2018 10:03:16: #1 Redundant rate of treatment: 0.31 INFO @ Thu, 05 Apr 2018 10:03:16: #1 finished! INFO @ Thu, 05 Apr 2018 10:03:16: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:03:16: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:03:17: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:03:17: 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 10:03:17: Process for pairing-model is terminated! cat: SRX3671175.10_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 `SRX3671175.10_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 `SRX3671175.10_*.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 `SRX3671175.10_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 10:03:19: 28000000 INFO @ Thu, 05 Apr 2018 10:03:19: 28000000 INFO @ Thu, 05 Apr 2018 10:03:20: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:03:20: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:03:20: #1 total tags in treatment: 13974481 INFO @ Thu, 05 Apr 2018 10:03:20: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:03:20: #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 10:03:20: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:03:20: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:03:20: #1 total tags in treatment: 13974481 INFO @ Thu, 05 Apr 2018 10:03:20: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:03:20: #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 10:03:20: #1 tags after filtering in treatment: 9672310 INFO @ Thu, 05 Apr 2018 10:03:20: #1 Redundant rate of treatment: 0.31 INFO @ Thu, 05 Apr 2018 10:03:20: #1 finished! INFO @ Thu, 05 Apr 2018 10:03:20: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:03:20: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:03:20: #1 tags after filtering in treatment: 9672310 INFO @ Thu, 05 Apr 2018 10:03:20: #1 Redundant rate of treatment: 0.31 INFO @ Thu, 05 Apr 2018 10:03:20: #1 finished! INFO @ Thu, 05 Apr 2018 10:03:20: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:03:20: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:03:21: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:03:21: 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 10:03:21: Process for pairing-model is terminated! INFO @ Thu, 05 Apr 2018 10:03:21: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:03:21: 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 10:03:21: Process for pairing-model is terminated! cat: SRX3671175.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3671175.05_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) pass1 - making usageList (0 chroms): 1 millis rm: cannot remove `SRX3671175.20_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 `SRX3671175.20_*.xls': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671175.20_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 rm: cannot remove `SRX3671175.05_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 `SRX3671175.05_*.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 `SRX3671175.05_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。