Job ID = 5791041 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 3,395,259 reads read : 6,790,518 reads written : 6,790,518 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:01:18 3395259 reads; of these: 3395259 (100.00%) were paired; of these: 797704 (23.49%) aligned concordantly 0 times 2293176 (67.54%) aligned concordantly exactly 1 time 304379 (8.96%) aligned concordantly >1 times ---- 797704 pairs aligned concordantly 0 times; of these: 137057 (17.18%) aligned discordantly 1 time ---- 660647 pairs aligned 0 times concordantly or discordantly; of these: 1321294 mates make up the pairs; of these: 1032448 (78.14%) aligned 0 times 228254 (17.28%) aligned exactly 1 time 60592 (4.59%) aligned >1 times 84.80% overall alignment rate Time searching: 00:01:18 Overall time: 00:01:18 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] 75960 / 2710518 = 0.0280 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 08:23:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.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, 22 Apr 2020 08:23:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:23:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:23:23: 1000000 INFO @ Wed, 22 Apr 2020 08:23:27: 2000000 INFO @ Wed, 22 Apr 2020 08:23:31: 3000000 INFO @ Wed, 22 Apr 2020 08:23:36: 4000000 INFO @ Wed, 22 Apr 2020 08:23:40: 5000000 INFO @ Wed, 22 Apr 2020 08:23:43: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:23:43: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:23:43: #1 total tags in treatment: 2525843 INFO @ Wed, 22 Apr 2020 08:23:43: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:23:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:23:43: #1 tags after filtering in treatment: 2067432 INFO @ Wed, 22 Apr 2020 08:23:43: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 08:23:43: #1 finished! INFO @ Wed, 22 Apr 2020 08:23:43: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:23:43: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:23:43: #2 number of paired peaks: 33 WARNING @ Wed, 22 Apr 2020 08:23:43: Too few paired peaks (33) 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, 22 Apr 2020 08:23:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 08:23:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.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, 22 Apr 2020 08:23:49: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:23:49: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:23:53: 1000000 INFO @ Wed, 22 Apr 2020 08:23:57: 2000000 INFO @ Wed, 22 Apr 2020 08:24:02: 3000000 INFO @ Wed, 22 Apr 2020 08:24:06: 4000000 INFO @ Wed, 22 Apr 2020 08:24:10: 5000000 INFO @ Wed, 22 Apr 2020 08:24:13: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:24:13: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:24:13: #1 total tags in treatment: 2525843 INFO @ Wed, 22 Apr 2020 08:24:13: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:24:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:24:13: #1 tags after filtering in treatment: 2067432 INFO @ Wed, 22 Apr 2020 08:24:13: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 08:24:13: #1 finished! INFO @ Wed, 22 Apr 2020 08:24:13: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:24:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:24:13: #2 number of paired peaks: 33 WARNING @ Wed, 22 Apr 2020 08:24:13: Too few paired peaks (33) 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, 22 Apr 2020 08:24:13: Process for pairing-model is terminated! BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 08:24:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.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, 22 Apr 2020 08:24:19: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:24:19: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:24:23: 1000000 INFO @ Wed, 22 Apr 2020 08:24:27: 2000000 INFO @ Wed, 22 Apr 2020 08:24:31: 3000000 INFO @ Wed, 22 Apr 2020 08:24:36: 4000000 INFO @ Wed, 22 Apr 2020 08:24:40: 5000000 INFO @ Wed, 22 Apr 2020 08:24:42: #1 tag size is determined as 37 bps INFO @ Wed, 22 Apr 2020 08:24:42: #1 tag size = 37 INFO @ Wed, 22 Apr 2020 08:24:42: #1 total tags in treatment: 2525843 INFO @ Wed, 22 Apr 2020 08:24:42: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:24:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:24:42: #1 tags after filtering in treatment: 2067432 INFO @ Wed, 22 Apr 2020 08:24:42: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 22 Apr 2020 08:24:42: #1 finished! INFO @ Wed, 22 Apr 2020 08:24:42: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:24:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:24:43: #2 number of paired peaks: 33 WARNING @ Wed, 22 Apr 2020 08:24:43: Too few paired peaks (33) 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, 22 Apr 2020 08:24:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5883265/SRX5883265.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。