Job ID = 5791782 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,037,230 reads read : 14,074,460 reads written : 14,074,460 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: 00:04:18 7037230 reads; of these: 7037230 (100.00%) were paired; of these: 1731178 (24.60%) aligned concordantly 0 times 4569874 (64.94%) aligned concordantly exactly 1 time 736178 (10.46%) aligned concordantly >1 times ---- 1731178 pairs aligned concordantly 0 times; of these: 509896 (29.45%) aligned discordantly 1 time ---- 1221282 pairs aligned 0 times concordantly or discordantly; of these: 2442564 mates make up the pairs; of these: 2142097 (87.70%) aligned 0 times 124373 (5.09%) aligned exactly 1 time 176094 (7.21%) aligned >1 times 84.78% overall alignment rate Time searching: 00:04:18 Overall time: 00:04:18 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_sort_core] merging from 8 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] 641151 / 5776230 = 0.1110 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 10:56:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.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 10:56:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:56:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:56:16: 1000000 INFO @ Wed, 22 Apr 2020 10:56:21: 2000000 INFO @ Wed, 22 Apr 2020 10:56:26: 3000000 INFO @ Wed, 22 Apr 2020 10:56:31: 4000000 INFO @ Wed, 22 Apr 2020 10:56:36: 5000000 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 10:56:41: 6000000 INFO @ Wed, 22 Apr 2020 10:56:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.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 10:56:41: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:56:41: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:56:47: 7000000 INFO @ Wed, 22 Apr 2020 10:56:47: 1000000 INFO @ Wed, 22 Apr 2020 10:56:52: 8000000 INFO @ Wed, 22 Apr 2020 10:56:52: 2000000 INFO @ Wed, 22 Apr 2020 10:56:57: 9000000 INFO @ Wed, 22 Apr 2020 10:56:57: 3000000 INFO @ Wed, 22 Apr 2020 10:57:03: 10000000 INFO @ Wed, 22 Apr 2020 10:57:03: 4000000 INFO @ Wed, 22 Apr 2020 10:57:06: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 10:57:06: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 10:57:06: #1 total tags in treatment: 4706436 INFO @ Wed, 22 Apr 2020 10:57:06: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:57:06: #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 10:57:06: #1 tags after filtering in treatment: 2908865 INFO @ Wed, 22 Apr 2020 10:57:06: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Apr 2020 10:57:06: #1 finished! INFO @ Wed, 22 Apr 2020 10:57:06: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:57:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:57:06: #2 number of paired peaks: 18 WARNING @ Wed, 22 Apr 2020 10:57:06: Too few paired peaks (18) 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 10:57:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.05_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/SRX7756593/SRX7756593.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:57:08: 5000000 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 INFO @ Wed, 22 Apr 2020 10:57:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.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 10:57:11: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:57:11: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:57:13: 6000000 INFO @ Wed, 22 Apr 2020 10:57:17: 1000000 INFO @ Wed, 22 Apr 2020 10:57:19: 7000000 INFO @ Wed, 22 Apr 2020 10:57:22: 2000000 INFO @ Wed, 22 Apr 2020 10:57:24: 8000000 INFO @ Wed, 22 Apr 2020 10:57:27: 3000000 INFO @ Wed, 22 Apr 2020 10:57:29: 9000000 INFO @ Wed, 22 Apr 2020 10:57:33: 4000000 INFO @ Wed, 22 Apr 2020 10:57:35: 10000000 INFO @ Wed, 22 Apr 2020 10:57:38: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 10:57:38: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 10:57:38: #1 total tags in treatment: 4706436 INFO @ Wed, 22 Apr 2020 10:57:38: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:57:38: #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 10:57:38: #1 tags after filtering in treatment: 2908865 INFO @ Wed, 22 Apr 2020 10:57:38: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Apr 2020 10:57:38: #1 finished! INFO @ Wed, 22 Apr 2020 10:57:38: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:57:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:57:38: 5000000 INFO @ Wed, 22 Apr 2020 10:57:39: #2 number of paired peaks: 18 WARNING @ Wed, 22 Apr 2020 10:57:39: Too few paired peaks (18) 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 10:57:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.10_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/SRX7756593/SRX7756593.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:57:44: 6000000 INFO @ Wed, 22 Apr 2020 10:57:49: 7000000 INFO @ Wed, 22 Apr 2020 10:57:54: 8000000 INFO @ Wed, 22 Apr 2020 10:57:59: 9000000 INFO @ Wed, 22 Apr 2020 10:58:04: 10000000 INFO @ Wed, 22 Apr 2020 10:58:08: #1 tag size is determined as 75 bps INFO @ Wed, 22 Apr 2020 10:58:08: #1 tag size = 75 INFO @ Wed, 22 Apr 2020 10:58:08: #1 total tags in treatment: 4706436 INFO @ Wed, 22 Apr 2020 10:58:08: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:58:08: #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 10:58:08: #1 tags after filtering in treatment: 2908865 INFO @ Wed, 22 Apr 2020 10:58:08: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Apr 2020 10:58:08: #1 finished! INFO @ Wed, 22 Apr 2020 10:58:08: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:58:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:58:08: #2 number of paired peaks: 18 WARNING @ Wed, 22 Apr 2020 10:58:08: Too few paired peaks (18) 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 10:58:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.20_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/SRX7756593/SRX7756593.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7756593/SRX7756593.20_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。