Job ID = 10536378 sra ファイルのダウンロード中... Completed: 1499654K bytes transferred in 25 seconds (481900K 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 40740603 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671138/SRR6696890.sra Written 40740603 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: 00:17:47 40740603 reads; of these: 40740603 (100.00%) were paired; of these: 20498378 (50.31%) aligned concordantly 0 times 17767199 (43.61%) aligned concordantly exactly 1 time 2475026 (6.08%) aligned concordantly >1 times ---- 20498378 pairs aligned concordantly 0 times; of these: 56191 (0.27%) aligned discordantly 1 time ---- 20442187 pairs aligned 0 times concordantly or discordantly; of these: 40884374 mates make up the pairs; of these: 40538075 (99.15%) aligned 0 times 282845 (0.69%) aligned exactly 1 time 63454 (0.16%) aligned >1 times 50.25% overall alignment rate Time searching: 00:17:47 Overall time: 00:17:47 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] 9635152 / 20252483 = 0.4758 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 09:33:30: # Command line: callpeak -t SRX3671138.bam -f BAM -g 12100000 -n SRX3671138.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671138.05 # format = BAM # ChIP-seq file = ['SRX3671138.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 09:33:30: # Command line: callpeak -t SRX3671138.bam -f BAM -g 12100000 -n SRX3671138.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671138.10 # format = BAM # ChIP-seq file = ['SRX3671138.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 09:33:30: # Command line: callpeak -t SRX3671138.bam -f BAM -g 12100000 -n SRX3671138.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671138.20 # format = BAM # ChIP-seq file = ['SRX3671138.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 09:33:30: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:33:30: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:33:30: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:33:30: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:33:30: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:33:30: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:33:35: 1000000 INFO @ Thu, 05 Apr 2018 09:33:35: 1000000 INFO @ Thu, 05 Apr 2018 09:33:35: 1000000 INFO @ Thu, 05 Apr 2018 09:33:40: 2000000 INFO @ Thu, 05 Apr 2018 09:33:41: 2000000 INFO @ Thu, 05 Apr 2018 09:33:41: 2000000 INFO @ Thu, 05 Apr 2018 09:33:46: 3000000 INFO @ Thu, 05 Apr 2018 09:33:46: 3000000 INFO @ Thu, 05 Apr 2018 09:33:46: 3000000 INFO @ Thu, 05 Apr 2018 09:33:51: 4000000 INFO @ Thu, 05 Apr 2018 09:33:52: 4000000 INFO @ Thu, 05 Apr 2018 09:33:52: 4000000 INFO @ Thu, 05 Apr 2018 09:33:57: 5000000 INFO @ Thu, 05 Apr 2018 09:33:57: 5000000 INFO @ Thu, 05 Apr 2018 09:33:57: 5000000 INFO @ Thu, 05 Apr 2018 09:34:02: 6000000 INFO @ Thu, 05 Apr 2018 09:34:02: 6000000 INFO @ Thu, 05 Apr 2018 09:34:03: 6000000 INFO @ Thu, 05 Apr 2018 09:34:08: 7000000 INFO @ Thu, 05 Apr 2018 09:34:08: 7000000 INFO @ Thu, 05 Apr 2018 09:34:08: 7000000 INFO @ Thu, 05 Apr 2018 09:34:13: 8000000 INFO @ Thu, 05 Apr 2018 09:34:14: 8000000 INFO @ Thu, 05 Apr 2018 09:34:14: 8000000 INFO @ Thu, 05 Apr 2018 09:34:19: 9000000 INFO @ Thu, 05 Apr 2018 09:34:19: 9000000 INFO @ Thu, 05 Apr 2018 09:34:19: 9000000 INFO @ Thu, 05 Apr 2018 09:34:24: 10000000 INFO @ Thu, 05 Apr 2018 09:34:25: 10000000 INFO @ Thu, 05 Apr 2018 09:34:25: 10000000 INFO @ Thu, 05 Apr 2018 09:34:30: 11000000 INFO @ Thu, 05 Apr 2018 09:34:30: 11000000 INFO @ Thu, 05 Apr 2018 09:34:30: 11000000 INFO @ Thu, 05 Apr 2018 09:34:35: 12000000 INFO @ Thu, 05 Apr 2018 09:34:36: 12000000 INFO @ Thu, 05 Apr 2018 09:34:36: 12000000 INFO @ Thu, 05 Apr 2018 09:34:41: 13000000 INFO @ Thu, 05 Apr 2018 09:34:41: 13000000 INFO @ Thu, 05 Apr 2018 09:34:42: 13000000 INFO @ Thu, 05 Apr 2018 09:34:46: 14000000 INFO @ Thu, 05 Apr 2018 09:34:47: 14000000 INFO @ Thu, 05 Apr 2018 09:34:47: 14000000 INFO @ Thu, 05 Apr 2018 09:34:52: 15000000 INFO @ Thu, 05 Apr 2018 09:34:52: 15000000 INFO @ Thu, 05 Apr 2018 09:34:53: 15000000 INFO @ Thu, 05 Apr 2018 09:34:57: 16000000 INFO @ Thu, 05 Apr 2018 09:34:58: 16000000 INFO @ Thu, 05 Apr 2018 09:34:58: 16000000 INFO @ Thu, 05 Apr 2018 09:35:03: 17000000 INFO @ Thu, 05 Apr 2018 09:35:03: 17000000 INFO @ Thu, 05 Apr 2018 09:35:04: 17000000 INFO @ Thu, 05 Apr 2018 09:35:08: 18000000 INFO @ Thu, 05 Apr 2018 09:35:09: 18000000 INFO @ Thu, 05 Apr 2018 09:35:09: 18000000 INFO @ Thu, 05 Apr 2018 09:35:14: 19000000 INFO @ Thu, 05 Apr 2018 09:35:14: 19000000 INFO @ Thu, 05 Apr 2018 09:35:15: 19000000 INFO @ Thu, 05 Apr 2018 09:35:19: 20000000 INFO @ Thu, 05 Apr 2018 09:35:20: 20000000 INFO @ Thu, 05 Apr 2018 09:35:20: 20000000 INFO @ Thu, 05 Apr 2018 09:35:25: 21000000 INFO @ Thu, 05 Apr 2018 09:35:25: 21000000 INFO @ Thu, 05 Apr 2018 09:35:26: 21000000 INFO @ Thu, 05 Apr 2018 09:35:29: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:35:29: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:35:29: #1 total tags in treatment: 10611680 INFO @ Thu, 05 Apr 2018 09:35:29: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:35:29: #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 09:35:29: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:35:29: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:35:29: #1 total tags in treatment: 10611680 INFO @ Thu, 05 Apr 2018 09:35:29: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:35:29: #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 09:35:29: #1 tags after filtering in treatment: 7875741 INFO @ Thu, 05 Apr 2018 09:35:29: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:35:29: #1 finished! INFO @ Thu, 05 Apr 2018 09:35:29: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:35:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:35:29: #1 tags after filtering in treatment: 7875741 INFO @ Thu, 05 Apr 2018 09:35:29: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:35:29: #1 finished! INFO @ Thu, 05 Apr 2018 09:35:29: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:35:29: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:35:29: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:35:29: 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 09:35:29: Process for pairing-model is terminated! INFO @ Thu, 05 Apr 2018 09:35:29: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:35:29: 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 09:35:29: Process for pairing-model is terminated! cat: SRX3671138.10_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: SRX3671138.20_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 `SRX3671138.10_model.r': そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis rm: cannot remove `SRX3671138.10_*.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 `SRX3671138.10_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671138.20_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 `SRX3671138.20_*.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 `SRX3671138.20_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 09:35:30: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:35:30: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:35:30: #1 total tags in treatment: 10611680 INFO @ Thu, 05 Apr 2018 09:35:30: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:35:30: #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 09:35:30: #1 tags after filtering in treatment: 7875741 INFO @ Thu, 05 Apr 2018 09:35:30: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 09:35:30: #1 finished! INFO @ Thu, 05 Apr 2018 09:35:30: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:35:30: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:35:30: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:35:30: 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 09:35:30: Process for pairing-model is terminated! cat: SRX3671138.05_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 `SRX3671138.05_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 `SRX3671138.05_*.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 `SRX3671138.05_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。