Job ID = 10536533 sra ファイルのダウンロード中... Completed: 1105617K bytes transferred in 33 seconds (272994K 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 30434521 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671224/SRR6696976.sra Written 30434521 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: 00:18:00 30434521 reads; of these: 30434521 (100.00%) were paired; of these: 9403798 (30.90%) aligned concordantly 0 times 18083216 (59.42%) aligned concordantly exactly 1 time 2947507 (9.68%) aligned concordantly >1 times ---- 9403798 pairs aligned concordantly 0 times; of these: 137912 (1.47%) aligned discordantly 1 time ---- 9265886 pairs aligned 0 times concordantly or discordantly; of these: 18531772 mates make up the pairs; of these: 18324468 (98.88%) aligned 0 times 115583 (0.62%) aligned exactly 1 time 91721 (0.49%) aligned >1 times 69.90% overall alignment rate Time searching: 00:18:00 Overall time: 00:18:00 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] 6950483 / 21119274 = 0.3291 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 10:33:21: # Command line: callpeak -t SRX3671224.bam -f BAM -g 12100000 -n SRX3671224.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671224.20 # format = BAM # ChIP-seq file = ['SRX3671224.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 10:33:21: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:33:21: # Command line: callpeak -t SRX3671224.bam -f BAM -g 12100000 -n SRX3671224.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671224.05 # format = BAM # ChIP-seq file = ['SRX3671224.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 10:33:21: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:33:21: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:33:21: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:33:21: # Command line: callpeak -t SRX3671224.bam -f BAM -g 12100000 -n SRX3671224.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671224.10 # format = BAM # ChIP-seq file = ['SRX3671224.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 10:33:21: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:33:21: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:33:30: 1000000 INFO @ Thu, 05 Apr 2018 10:33:30: 1000000 INFO @ Thu, 05 Apr 2018 10:33:30: 1000000 INFO @ Thu, 05 Apr 2018 10:33:38: 2000000 INFO @ Thu, 05 Apr 2018 10:33:38: 2000000 INFO @ Thu, 05 Apr 2018 10:33:38: 2000000 INFO @ Thu, 05 Apr 2018 10:33:47: 3000000 INFO @ Thu, 05 Apr 2018 10:33:47: 3000000 INFO @ Thu, 05 Apr 2018 10:33:47: 3000000 INFO @ Thu, 05 Apr 2018 10:33:55: 4000000 INFO @ Thu, 05 Apr 2018 10:33:55: 4000000 INFO @ Thu, 05 Apr 2018 10:33:55: 4000000 INFO @ Thu, 05 Apr 2018 10:34:03: 5000000 INFO @ Thu, 05 Apr 2018 10:34:04: 5000000 INFO @ Thu, 05 Apr 2018 10:34:04: 5000000 INFO @ Thu, 05 Apr 2018 10:34:12: 6000000 INFO @ Thu, 05 Apr 2018 10:34:12: 6000000 INFO @ Thu, 05 Apr 2018 10:34:12: 6000000 INFO @ Thu, 05 Apr 2018 10:34:20: 7000000 INFO @ Thu, 05 Apr 2018 10:34:21: 7000000 INFO @ Thu, 05 Apr 2018 10:34:21: 7000000 INFO @ Thu, 05 Apr 2018 10:34:29: 8000000 INFO @ Thu, 05 Apr 2018 10:34:29: 8000000 INFO @ Thu, 05 Apr 2018 10:34:29: 8000000 INFO @ Thu, 05 Apr 2018 10:34:37: 9000000 INFO @ Thu, 05 Apr 2018 10:34:38: 9000000 INFO @ Thu, 05 Apr 2018 10:34:38: 9000000 INFO @ Thu, 05 Apr 2018 10:34:46: 10000000 INFO @ Thu, 05 Apr 2018 10:34:46: 10000000 INFO @ Thu, 05 Apr 2018 10:34:46: 10000000 INFO @ Thu, 05 Apr 2018 10:34:54: 11000000 INFO @ Thu, 05 Apr 2018 10:34:55: 11000000 INFO @ Thu, 05 Apr 2018 10:34:55: 11000000 INFO @ Thu, 05 Apr 2018 10:35:03: 12000000 INFO @ Thu, 05 Apr 2018 10:35:03: 12000000 INFO @ Thu, 05 Apr 2018 10:35:03: 12000000 INFO @ Thu, 05 Apr 2018 10:35:11: 13000000 INFO @ Thu, 05 Apr 2018 10:35:12: 13000000 INFO @ Thu, 05 Apr 2018 10:35:12: 13000000 INFO @ Thu, 05 Apr 2018 10:35:19: 14000000 INFO @ Thu, 05 Apr 2018 10:35:21: 14000000 INFO @ Thu, 05 Apr 2018 10:35:21: 14000000 INFO @ Thu, 05 Apr 2018 10:35:28: 15000000 INFO @ Thu, 05 Apr 2018 10:35:29: 15000000 INFO @ Thu, 05 Apr 2018 10:35:29: 15000000 INFO @ Thu, 05 Apr 2018 10:35:36: 16000000 INFO @ Thu, 05 Apr 2018 10:35:38: 16000000 INFO @ Thu, 05 Apr 2018 10:35:38: 16000000 INFO @ Thu, 05 Apr 2018 10:35:45: 17000000 INFO @ Thu, 05 Apr 2018 10:35:47: 17000000 INFO @ Thu, 05 Apr 2018 10:35:47: 17000000 INFO @ Thu, 05 Apr 2018 10:35:53: 18000000 INFO @ Thu, 05 Apr 2018 10:35:55: 18000000 INFO @ Thu, 05 Apr 2018 10:35:55: 18000000 INFO @ Thu, 05 Apr 2018 10:36:01: 19000000 INFO @ Thu, 05 Apr 2018 10:36:04: 19000000 INFO @ Thu, 05 Apr 2018 10:36:04: 19000000 INFO @ Thu, 05 Apr 2018 10:36:10: 20000000 INFO @ Thu, 05 Apr 2018 10:36:13: 20000000 INFO @ Thu, 05 Apr 2018 10:36:13: 20000000 INFO @ Thu, 05 Apr 2018 10:36:18: 21000000 INFO @ Thu, 05 Apr 2018 10:36:22: 21000000 INFO @ Thu, 05 Apr 2018 10:36:22: 21000000 INFO @ Thu, 05 Apr 2018 10:36:27: 22000000 INFO @ Thu, 05 Apr 2018 10:36:30: 22000000 INFO @ Thu, 05 Apr 2018 10:36:30: 22000000 INFO @ Thu, 05 Apr 2018 10:36:35: 23000000 INFO @ Thu, 05 Apr 2018 10:36:39: 23000000 INFO @ Thu, 05 Apr 2018 10:36:39: 23000000 INFO @ Thu, 05 Apr 2018 10:36:44: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 05 Apr 2018 10:36:48: 24000000 INFO @ Thu, 05 Apr 2018 10:36:48: 24000000 INFO @ Thu, 05 Apr 2018 10:36:52: 25000000 INFO @ Thu, 05 Apr 2018 10:36:56: 25000000 INFO @ Thu, 05 Apr 2018 10:36:56: 25000000 INFO @ Thu, 05 Apr 2018 10:37:01: 26000000 INFO @ Thu, 05 Apr 2018 10:37:04: 26000000 INFO @ Thu, 05 Apr 2018 10:37:04: 26000000 BigWig に変換しました。 INFO @ Thu, 05 Apr 2018 10:37:09: 27000000 INFO @ Thu, 05 Apr 2018 10:37:12: 27000000 INFO @ Thu, 05 Apr 2018 10:37:12: 27000000 INFO @ Thu, 05 Apr 2018 10:37:18: 28000000 INFO @ Thu, 05 Apr 2018 10:37:21: 28000000 INFO @ Thu, 05 Apr 2018 10:37:21: 28000000 INFO @ Thu, 05 Apr 2018 10:37:23: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:37:23: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:37:23: #1 total tags in treatment: 14116597 INFO @ Thu, 05 Apr 2018 10:37:23: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:37:23: #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 10:37:23: #1 tags after filtering in treatment: 6070693 INFO @ Thu, 05 Apr 2018 10:37:23: #1 Redundant rate of treatment: 0.57 INFO @ Thu, 05 Apr 2018 10:37:23: #1 finished! INFO @ Thu, 05 Apr 2018 10:37:23: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:37:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:37:23: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:37:23: 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 10:37:23: Process for pairing-model is terminated! cat: SRX3671224.10_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 `SRX3671224.10_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 `SRX3671224.10_*.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 `SRX3671224.10_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 10:37:26: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:37:26: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:37:26: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:37:26: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:37:26: #1 total tags in treatment: 14116597 INFO @ Thu, 05 Apr 2018 10:37:26: #1 total tags in treatment: 14116597 INFO @ Thu, 05 Apr 2018 10:37:26: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:37:26: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:37:26: #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 10:37:26: #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 10:37:26: #1 tags after filtering in treatment: 6070693 INFO @ Thu, 05 Apr 2018 10:37:26: #1 tags after filtering in treatment: 6070693 INFO @ Thu, 05 Apr 2018 10:37:26: #1 Redundant rate of treatment: 0.57 INFO @ Thu, 05 Apr 2018 10:37:26: #1 Redundant rate of treatment: 0.57 INFO @ Thu, 05 Apr 2018 10:37:26: #1 finished! INFO @ Thu, 05 Apr 2018 10:37:26: #1 finished! INFO @ Thu, 05 Apr 2018 10:37:26: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:37:26: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:37:26: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:37:26: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:37:26: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:37:26: 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 10:37:26: Process for pairing-model is terminated! INFO @ Thu, 05 Apr 2018 10:37:26: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:37:26: 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 10:37:26: Process for pairing-model is terminated! cat: SRX3671224.05_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: SRX3671224.20_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): 2 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671224.05_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 `SRX3671224.20_model.r'rm: cannot remove `SRX3671224.05_*.xls': 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: rm: cannot remove `SRX3671224.20_*.xls'cannot remove `SRX3671224.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません: 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 `SRX3671224.20_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