Job ID = 9161726 sra ファイルのダウンロード中... Completed: 1642620K bytes transferred in 19 seconds (692821K 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 11266362 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1004419/SRR1986237.sra Written 11266362 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: 00:15:08 11266362 reads; of these: 11266362 (100.00%) were paired; of these: 3912021 (34.72%) aligned concordantly 0 times 6647621 (59.00%) aligned concordantly exactly 1 time 706720 (6.27%) aligned concordantly >1 times ---- 3912021 pairs aligned concordantly 0 times; of these: 1261766 (32.25%) aligned discordantly 1 time ---- 2650255 pairs aligned 0 times concordantly or discordantly; of these: 5300510 mates make up the pairs; of these: 4699092 (88.65%) aligned 0 times 294007 (5.55%) aligned exactly 1 time 307411 (5.80%) aligned >1 times 79.15% overall alignment rate Time searching: 00:15:08 Overall time: 00:15:08 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 8 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] 478155 / 8553453 = 0.0559 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 @ Wed, 28 Jun 2017 04:50:23: # Command line: callpeak -t SRX1004419.bam -f BAM -g 12100000 -n SRX1004419.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1004419.10 # format = BAM # ChIP-seq file = ['SRX1004419.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 @ Wed, 28 Jun 2017 04:50:23: # Command line: callpeak -t SRX1004419.bam -f BAM -g 12100000 -n SRX1004419.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1004419.05 # format = BAM # ChIP-seq file = ['SRX1004419.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 @ Wed, 28 Jun 2017 04:50:23: # Command line: callpeak -t SRX1004419.bam -f BAM -g 12100000 -n SRX1004419.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1004419.20 # format = BAM # ChIP-seq file = ['SRX1004419.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 @ Wed, 28 Jun 2017 04:50:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:23: #1 read tag files... INFO @ Wed, 28 Jun 2017 04:50:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:23: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 04:50:32: 1000000 INFO @ Wed, 28 Jun 2017 04:50:32: 1000000 INFO @ Wed, 28 Jun 2017 04:50:32: 1000000 INFO @ Wed, 28 Jun 2017 04:50:41: 2000000 INFO @ Wed, 28 Jun 2017 04:50:41: 2000000 INFO @ Wed, 28 Jun 2017 04:50:41: 2000000 INFO @ Wed, 28 Jun 2017 04:50:50: 3000000 INFO @ Wed, 28 Jun 2017 04:50:50: 3000000 INFO @ Wed, 28 Jun 2017 04:50:50: 3000000 INFO @ Wed, 28 Jun 2017 04:50:59: 4000000 INFO @ Wed, 28 Jun 2017 04:50:59: 4000000 INFO @ Wed, 28 Jun 2017 04:50:59: 4000000 INFO @ Wed, 28 Jun 2017 04:51:08: 5000000 INFO @ Wed, 28 Jun 2017 04:51:08: 5000000 INFO @ Wed, 28 Jun 2017 04:51:08: 5000000 INFO @ Wed, 28 Jun 2017 04:51:17: 6000000 INFO @ Wed, 28 Jun 2017 04:51:17: 6000000 INFO @ Wed, 28 Jun 2017 04:51:17: 6000000 INFO @ Wed, 28 Jun 2017 04:51:26: 7000000 INFO @ Wed, 28 Jun 2017 04:51:26: 7000000 INFO @ Wed, 28 Jun 2017 04:51:26: 7000000 INFO @ Wed, 28 Jun 2017 04:51:35: 8000000 INFO @ Wed, 28 Jun 2017 04:51:35: 8000000 INFO @ Wed, 28 Jun 2017 04:51:35: 8000000 INFO @ Wed, 28 Jun 2017 04:51:44: 9000000 INFO @ Wed, 28 Jun 2017 04:51:44: 9000000 INFO @ Wed, 28 Jun 2017 04:51:44: 9000000 INFO @ Wed, 28 Jun 2017 04:51:53: 10000000 INFO @ Wed, 28 Jun 2017 04:51:53: 10000000 INFO @ Wed, 28 Jun 2017 04:51:53: 10000000 INFO @ Wed, 28 Jun 2017 04:52:02: 11000000 INFO @ Wed, 28 Jun 2017 04:52:02: 11000000 INFO @ Wed, 28 Jun 2017 04:52:02: 11000000 INFO @ Wed, 28 Jun 2017 04:52:10: 12000000 INFO @ Wed, 28 Jun 2017 04:52:10: 12000000 INFO @ Wed, 28 Jun 2017 04:52:10: 12000000 INFO @ Wed, 28 Jun 2017 04:52:19: 13000000 INFO @ Wed, 28 Jun 2017 04:52:19: 13000000 INFO @ Wed, 28 Jun 2017 04:52:19: 13000000 INFO @ Wed, 28 Jun 2017 04:52:28: 14000000 INFO @ Wed, 28 Jun 2017 04:52:28: 14000000 INFO @ Wed, 28 Jun 2017 04:52:28: 14000000 INFO @ Wed, 28 Jun 2017 04:52:37: 15000000 INFO @ Wed, 28 Jun 2017 04:52:37: 15000000 INFO @ Wed, 28 Jun 2017 04:52:37: 15000000 INFO @ Wed, 28 Jun 2017 04:52:46: 16000000 INFO @ Wed, 28 Jun 2017 04:52:46: 16000000 INFO @ Wed, 28 Jun 2017 04:52:46: 16000000 INFO @ Wed, 28 Jun 2017 04:52:54: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 04:52:54: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 04:52:54: #1 total tags in treatment: 6942408 INFO @ Wed, 28 Jun 2017 04:52:54: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:52:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 04:52:54: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 04:52:54: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 04:52:54: #1 total tags in treatment: 6942408 INFO @ Wed, 28 Jun 2017 04:52:54: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:52:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 04:52:54: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 04:52:54: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 04:52:54: #1 total tags in treatment: 6942408 INFO @ Wed, 28 Jun 2017 04:52:54: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 04:52:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 04:52:54: #1 tags after filtering in treatment: 4270787 INFO @ Wed, 28 Jun 2017 04:52:54: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 04:52:54: #1 finished! INFO @ Wed, 28 Jun 2017 04:52:54: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:52:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:52:54: #1 tags after filtering in treatment: 4270787 INFO @ Wed, 28 Jun 2017 04:52:54: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 04:52:54: #1 finished! INFO @ Wed, 28 Jun 2017 04:52:54: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:52:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:52:54: #1 tags after filtering in treatment: 4270787 INFO @ Wed, 28 Jun 2017 04:52:54: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 04:52:54: #1 finished! INFO @ Wed, 28 Jun 2017 04:52:54: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 04:52:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 04:52:54: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:52:54: 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 @ Wed, 28 Jun 2017 04:52:54: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 04:52:54: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:52:54: 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 @ Wed, 28 Jun 2017 04:52:54: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 04:52:54: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 04:52:54: 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 @ Wed, 28 Jun 2017 04:52:54: Process for pairing-model is terminated! cat: SRX1004419.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1004419.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1004419.20_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)pass1 - making usageList (0 chroms): 1 millis : 1 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1004419.10_model.r'rm: : そのようなファイルやディレクトリはありませんcannot remove `SRX1004419.05_model.r' rm: cannot remove `SRX1004419.20_model.r': そのようなファイルやディレクトリはありません : 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 `SRX1004419.10_*.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 `SRX1004419.20_*.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 `SRX1004419.05_*.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 `SRX1004419.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1004419.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1004419.20_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 CompletedMACS2peakCalling CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。