Job ID = 11192888 sra ファイルのダウンロード中... Completed: 1141244K bytes transferred in 48 seconds (191332K 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... Read 15823174 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771766/SRR5488921.sra Written 15823174 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771766/SRR5488921.sra 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: 00:14:20 15823174 reads; of these: 15823174 (100.00%) were paired; of these: 3473025 (21.95%) aligned concordantly 0 times 8871093 (56.06%) aligned concordantly exactly 1 time 3479056 (21.99%) aligned concordantly >1 times ---- 3473025 pairs aligned concordantly 0 times; of these: 21745 (0.63%) aligned discordantly 1 time ---- 3451280 pairs aligned 0 times concordantly or discordantly; of these: 6902560 mates make up the pairs; of these: 6569815 (95.18%) aligned 0 times 256466 (3.72%) aligned exactly 1 time 76279 (1.11%) aligned >1 times 79.24% overall alignment rate Time searching: 00:14:20 Overall time: 00:14:20 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 12 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] 3754633 / 12354167 = 0.3039 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 @ Sat, 15 Sep 2018 10:42:09: # Command line: callpeak -t SRX2771766.bam -f BAM -g 12100000 -n SRX2771766.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2771766.10 # format = BAM # ChIP-seq file = ['SRX2771766.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 @ Sat, 15 Sep 2018 10:42:09: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:42:09: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:42:09: # Command line: callpeak -t SRX2771766.bam -f BAM -g 12100000 -n SRX2771766.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2771766.20 # format = BAM # ChIP-seq file = ['SRX2771766.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 @ Sat, 15 Sep 2018 10:42:09: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:42:09: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:42:09: # Command line: callpeak -t SRX2771766.bam -f BAM -g 12100000 -n SRX2771766.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2771766.05 # format = BAM # ChIP-seq file = ['SRX2771766.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 @ Sat, 15 Sep 2018 10:42:09: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:42:09: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:42:17: 1000000 INFO @ Sat, 15 Sep 2018 10:42:17: 1000000 INFO @ Sat, 15 Sep 2018 10:42:17: 1000000 INFO @ Sat, 15 Sep 2018 10:42:25: 2000000 INFO @ Sat, 15 Sep 2018 10:42:26: 2000000 INFO @ Sat, 15 Sep 2018 10:42:26: 2000000 INFO @ Sat, 15 Sep 2018 10:42:34: 3000000 INFO @ Sat, 15 Sep 2018 10:42:34: 3000000 INFO @ Sat, 15 Sep 2018 10:42:34: 3000000 INFO @ Sat, 15 Sep 2018 10:42:42: 4000000 INFO @ Sat, 15 Sep 2018 10:42:43: 4000000 INFO @ Sat, 15 Sep 2018 10:42:43: 4000000 INFO @ Sat, 15 Sep 2018 10:42:50: 5000000 INFO @ Sat, 15 Sep 2018 10:42:51: 5000000 INFO @ Sat, 15 Sep 2018 10:42:51: 5000000 INFO @ Sat, 15 Sep 2018 10:42:58: 6000000 INFO @ Sat, 15 Sep 2018 10:43:00: 6000000 INFO @ Sat, 15 Sep 2018 10:43:00: 6000000 INFO @ Sat, 15 Sep 2018 10:43:06: 7000000 INFO @ Sat, 15 Sep 2018 10:43:08: 7000000 INFO @ Sat, 15 Sep 2018 10:43:08: 7000000 INFO @ Sat, 15 Sep 2018 10:43:15: 8000000 INFO @ Sat, 15 Sep 2018 10:43:17: 8000000 INFO @ Sat, 15 Sep 2018 10:43:17: 8000000 INFO @ Sat, 15 Sep 2018 10:43:23: 9000000 INFO @ Sat, 15 Sep 2018 10:43:26: 9000000 INFO @ Sat, 15 Sep 2018 10:43:26: 9000000 INFO @ Sat, 15 Sep 2018 10:43:32: 10000000 INFO @ Sat, 15 Sep 2018 10:43:34: 10000000 INFO @ Sat, 15 Sep 2018 10:43:34: 10000000 INFO @ Sat, 15 Sep 2018 10:43:40: 11000000 INFO @ Sat, 15 Sep 2018 10:43:42: 11000000 INFO @ Sat, 15 Sep 2018 10:43:42: 11000000 INFO @ Sat, 15 Sep 2018 10:43:49: 12000000 INFO @ Sat, 15 Sep 2018 10:43:51: 12000000 INFO @ Sat, 15 Sep 2018 10:43:51: 12000000 INFO @ Sat, 15 Sep 2018 10:43:59: 13000000 INFO @ Sat, 15 Sep 2018 10:44:01: 13000000 INFO @ Sat, 15 Sep 2018 10:44:01: 13000000 INFO @ Sat, 15 Sep 2018 10:44:07: 14000000 INFO @ Sat, 15 Sep 2018 10:44:10: 14000000 INFO @ Sat, 15 Sep 2018 10:44:10: 14000000 INFO @ Sat, 15 Sep 2018 10:44:14: 15000000 INFO @ Sat, 15 Sep 2018 10:44:18: 15000000 INFO @ Sat, 15 Sep 2018 10:44:18: 15000000 INFO @ Sat, 15 Sep 2018 10:44:22: 16000000 INFO @ Sat, 15 Sep 2018 10:44:26: 16000000 INFO @ Sat, 15 Sep 2018 10:44:26: 16000000 INFO @ Sat, 15 Sep 2018 10:44:30: 17000000 INFO @ Sat, 15 Sep 2018 10:44:34: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:44:34: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:44:34: #1 total tags in treatment: 8596181 INFO @ Sat, 15 Sep 2018 10:44:34: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:44:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:44:34: #1 tags after filtering in treatment: 5610789 INFO @ Sat, 15 Sep 2018 10:44:34: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Sep 2018 10:44:34: #1 finished! INFO @ Sat, 15 Sep 2018 10:44:34: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:44:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:44:35: 17000000 INFO @ Sat, 15 Sep 2018 10:44:35: 17000000 INFO @ Sat, 15 Sep 2018 10:44:35: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:44:35: 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 @ Sat, 15 Sep 2018 10:44:35: Process for pairing-model is terminated! cat: SRX2771766.05_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 `SRX2771766.05_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 `SRX2771766.05_*.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 `SRX2771766.05_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 @ Sat, 15 Sep 2018 10:44:39: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:44:39: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:44:39: #1 total tags in treatment: 8596181 INFO @ Sat, 15 Sep 2018 10:44:39: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:44:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:44:39: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:44:39: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:44:39: #1 total tags in treatment: 8596181 INFO @ Sat, 15 Sep 2018 10:44:39: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:44:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:44:39: #1 tags after filtering in treatment: 5610789 INFO @ Sat, 15 Sep 2018 10:44:39: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Sep 2018 10:44:39: #1 finished! INFO @ Sat, 15 Sep 2018 10:44:39: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:44:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:44:39: #1 tags after filtering in treatment: 5610789 INFO @ Sat, 15 Sep 2018 10:44:39: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Sep 2018 10:44:39: #1 finished! INFO @ Sat, 15 Sep 2018 10:44:39: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:44:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:44:40: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:44:40: 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 @ Sat, 15 Sep 2018 10:44:40: Process for pairing-model is terminated! INFO @ Sat, 15 Sep 2018 10:44:40: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:44:40: 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 @ Sat, 15 Sep 2018 10:44:40: Process for pairing-model is terminated! cat: SRX2771766.20_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: SRX2771766.10_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) pass1 - making usageList (0 chroms): 1 millis rm: cannot remove `SRX2771766.20_model.r'needLargeMem: trying to allocate 0 bytes (limit: 17179869184): 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 `SRX2771766.20_*.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 `SRX2771766.20_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 `SRX2771766.10_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 `SRX2771766.10_*.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 `SRX2771766.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。