Job ID = 11245146 sra ファイルのダウンロード中... Completed: 23383K bytes transferred in 2 seconds (64484K bits/sec), in 1 file. Completed: 161892K bytes transferred in 5 seconds (262796K 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 499116 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669596/SRR7818172.sra Written 499116 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669596/SRR7818172.sra Read 4344322 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669596/SRR7818173.sra Written 4344322 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669596/SRR7818173.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 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: 00:03:43 4843438 reads; of these: 4843438 (100.00%) were paired; of these: 447822 (9.25%) aligned concordantly 0 times 3788222 (78.21%) aligned concordantly exactly 1 time 607394 (12.54%) aligned concordantly >1 times ---- 447822 pairs aligned concordantly 0 times; of these: 19534 (4.36%) aligned discordantly 1 time ---- 428288 pairs aligned 0 times concordantly or discordantly; of these: 856576 mates make up the pairs; of these: 731511 (85.40%) aligned 0 times 70093 (8.18%) aligned exactly 1 time 54972 (6.42%) aligned >1 times 92.45% overall alignment rate Time searching: 00:03:43 Overall time: 00:03:43 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_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] 718082 / 4411758 = 0.1628 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 @ Tue, 09 Oct 2018 23:39:58: # Command line: callpeak -t SRX4669596.bam -f BAM -g 12100000 -n SRX4669596.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669596.10 # format = BAM # ChIP-seq file = ['SRX4669596.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 @ Tue, 09 Oct 2018 23:39:58: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:39:58: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:39:58: # Command line: callpeak -t SRX4669596.bam -f BAM -g 12100000 -n SRX4669596.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669596.20 # format = BAM # ChIP-seq file = ['SRX4669596.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 @ Tue, 09 Oct 2018 23:39:58: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:39:58: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:39:58: # Command line: callpeak -t SRX4669596.bam -f BAM -g 12100000 -n SRX4669596.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669596.05 # format = BAM # ChIP-seq file = ['SRX4669596.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 @ Tue, 09 Oct 2018 23:39:58: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:39:58: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:40:04: 1000000 INFO @ Tue, 09 Oct 2018 23:40:04: 1000000 INFO @ Tue, 09 Oct 2018 23:40:04: 1000000 INFO @ Tue, 09 Oct 2018 23:40:10: 2000000 INFO @ Tue, 09 Oct 2018 23:40:11: 2000000 INFO @ Tue, 09 Oct 2018 23:40:11: 2000000 INFO @ Tue, 09 Oct 2018 23:40:16: 3000000 INFO @ Tue, 09 Oct 2018 23:40:17: 3000000 INFO @ Tue, 09 Oct 2018 23:40:17: 3000000 INFO @ Tue, 09 Oct 2018 23:40:22: 4000000 INFO @ Tue, 09 Oct 2018 23:40:24: 4000000 INFO @ Tue, 09 Oct 2018 23:40:24: 4000000 INFO @ Tue, 09 Oct 2018 23:40:28: 5000000 INFO @ Tue, 09 Oct 2018 23:40:30: 5000000 INFO @ Tue, 09 Oct 2018 23:40:30: 5000000 INFO @ Tue, 09 Oct 2018 23:40:35: 6000000 INFO @ Tue, 09 Oct 2018 23:40:37: 6000000 INFO @ Tue, 09 Oct 2018 23:40:37: 6000000 INFO @ Tue, 09 Oct 2018 23:40:41: 7000000 INFO @ Tue, 09 Oct 2018 23:40:43: 7000000 INFO @ Tue, 09 Oct 2018 23:40:43: 7000000 INFO @ Tue, 09 Oct 2018 23:40:44: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:40:44: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:40:44: #1 total tags in treatment: 3680584 INFO @ Tue, 09 Oct 2018 23:40:44: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:40:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:40:44: #1 tags after filtering in treatment: 3087746 INFO @ Tue, 09 Oct 2018 23:40:44: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:40:44: #1 finished! INFO @ Tue, 09 Oct 2018 23:40:44: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:40:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:40:44: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:40:44: Too few paired peaks (34) 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 @ Tue, 09 Oct 2018 23:40:44: Process for pairing-model is terminated! cat: SRX4669596.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669596.10_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 `SRX4669596.10_*.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 `SRX4669596.10_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 @ Tue, 09 Oct 2018 23:40:46: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:40:46: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:40:46: #1 total tags in treatment: 3680584 INFO @ Tue, 09 Oct 2018 23:40:46: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:40:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:40:46: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:40:46: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:40:46: #1 total tags in treatment: 3680584 INFO @ Tue, 09 Oct 2018 23:40:46: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:40:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:40:46: #1 tags after filtering in treatment: 3087746 INFO @ Tue, 09 Oct 2018 23:40:46: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:40:46: #1 finished! INFO @ Tue, 09 Oct 2018 23:40:46: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:40:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:40:46: #1 tags after filtering in treatment: 3087746 INFO @ Tue, 09 Oct 2018 23:40:46: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 09 Oct 2018 23:40:46: #1 finished! INFO @ Tue, 09 Oct 2018 23:40:46: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:40:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:40:47: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:40:47: Too few paired peaks (34) 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 @ Tue, 09 Oct 2018 23:40:47: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:40:47: #2 number of paired peaks: 34 WARNING @ Tue, 09 Oct 2018 23:40:47: Too few paired peaks (34) 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 @ Tue, 09 Oct 2018 23:40:47: Process for pairing-model is terminated! cat: SRX4669596.20_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: SRX4669596.05_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 `SRX4669596.20_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 `SRX4669596.20_*.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 `SRX4669596.20_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 `SRX4669596.05_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 `SRX4669596.05_*.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 `SRX4669596.05_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。