Job ID = 10224114 SRX = SRX9038695 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14637624 spots for SRR12549476/SRR12549476.sra Written 14637624 spots for SRR12549476/SRR12549476.sra 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: 00:07:09 14637624 reads; of these: 14637624 (100.00%) were paired; of these: 12248229 (83.68%) aligned concordantly 0 times 540853 (3.69%) aligned concordantly exactly 1 time 1848542 (12.63%) aligned concordantly >1 times ---- 12248229 pairs aligned concordantly 0 times; of these: 107205 (0.88%) aligned discordantly 1 time ---- 12141024 pairs aligned 0 times concordantly or discordantly; of these: 24282048 mates make up the pairs; of these: 23431783 (96.50%) aligned 0 times 52077 (0.21%) aligned exactly 1 time 798188 (3.29%) aligned >1 times 19.96% overall alignment rate Time searching: 00:07:09 Overall time: 00:07:09 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] 671422 / 2480916 = 0.2706 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 @ Fri, 16 Oct 2020 09:38:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.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 @ Fri, 16 Oct 2020 09:38:15: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:38:15: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:38:22: 1000000 INFO @ Fri, 16 Oct 2020 09:38:28: 2000000 INFO @ Fri, 16 Oct 2020 09:38:34: 3000000 INFO @ Fri, 16 Oct 2020 09:38:40: 4000000 INFO @ Fri, 16 Oct 2020 09:38:43: #1 tag size is determined as 151 bps INFO @ Fri, 16 Oct 2020 09:38:43: #1 tag size = 151 INFO @ Fri, 16 Oct 2020 09:38:43: #1 total tags in treatment: 1726753 INFO @ Fri, 16 Oct 2020 09:38:43: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:38:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:38:43: #1 tags after filtering in treatment: 501055 INFO @ Fri, 16 Oct 2020 09:38:43: #1 Redundant rate of treatment: 0.71 INFO @ Fri, 16 Oct 2020 09:38:43: #1 finished! INFO @ Fri, 16 Oct 2020 09:38:43: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:38:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:38:43: #2 number of paired peaks: 93 WARNING @ Fri, 16 Oct 2020 09:38:43: Too few paired peaks (93) 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 @ Fri, 16 Oct 2020 09:38:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.05_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/SRX9038695/SRX9038695.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.05_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 @ Fri, 16 Oct 2020 09:38:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.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 @ Fri, 16 Oct 2020 09:38:45: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:38:45: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:38:52: 1000000 INFO @ Fri, 16 Oct 2020 09:38:58: 2000000 INFO @ Fri, 16 Oct 2020 09:39:04: 3000000 INFO @ Fri, 16 Oct 2020 09:39:10: 4000000 INFO @ Fri, 16 Oct 2020 09:39:13: #1 tag size is determined as 151 bps INFO @ Fri, 16 Oct 2020 09:39:13: #1 tag size = 151 INFO @ Fri, 16 Oct 2020 09:39:13: #1 total tags in treatment: 1726753 INFO @ Fri, 16 Oct 2020 09:39:13: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:39:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:39:13: #1 tags after filtering in treatment: 501055 INFO @ Fri, 16 Oct 2020 09:39:13: #1 Redundant rate of treatment: 0.71 INFO @ Fri, 16 Oct 2020 09:39:13: #1 finished! INFO @ Fri, 16 Oct 2020 09:39:13: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:39:13: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:39:13: #2 number of paired peaks: 93 WARNING @ Fri, 16 Oct 2020 09:39:13: Too few paired peaks (93) 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 @ Fri, 16 Oct 2020 09:39:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.10_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/SRX9038695/SRX9038695.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Fri, 16 Oct 2020 09:39:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.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 @ Fri, 16 Oct 2020 09:39:15: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:39:15: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:39:22: 1000000 INFO @ Fri, 16 Oct 2020 09:39:28: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:39:34: 3000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:39:40: 4000000 INFO @ Fri, 16 Oct 2020 09:39:43: #1 tag size is determined as 151 bps INFO @ Fri, 16 Oct 2020 09:39:43: #1 tag size = 151 INFO @ Fri, 16 Oct 2020 09:39:43: #1 total tags in treatment: 1726753 INFO @ Fri, 16 Oct 2020 09:39:43: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:39:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:39:43: #1 tags after filtering in treatment: 501055 INFO @ Fri, 16 Oct 2020 09:39:43: #1 Redundant rate of treatment: 0.71 INFO @ Fri, 16 Oct 2020 09:39:43: #1 finished! INFO @ Fri, 16 Oct 2020 09:39:43: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:39:43: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:39:44: #2 number of paired peaks: 93 WARNING @ Fri, 16 Oct 2020 09:39:44: Too few paired peaks (93) 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 @ Fri, 16 Oct 2020 09:39:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.20_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/SRX9038695/SRX9038695.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9038695/SRX9038695.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling