Job ID = 7110253 SRX = SRX8036518 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15111605 spots for SRR11458965/SRR11458965.sra Written 15111605 spots for SRR11458965/SRR11458965.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: 00:06:46 15111605 reads; of these: 15111605 (100.00%) were paired; of these: 12598113 (83.37%) aligned concordantly 0 times 2194680 (14.52%) aligned concordantly exactly 1 time 318812 (2.11%) aligned concordantly >1 times ---- 12598113 pairs aligned concordantly 0 times; of these: 53234 (0.42%) aligned discordantly 1 time ---- 12544879 pairs aligned 0 times concordantly or discordantly; of these: 25089758 mates make up the pairs; of these: 25049566 (99.84%) aligned 0 times 17760 (0.07%) aligned exactly 1 time 22432 (0.09%) aligned >1 times 17.12% overall alignment rate Time searching: 00:06:46 Overall time: 00:06:46 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] 353560 / 2564400 = 0.1379 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 Jul 2020 14:05:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.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 Jul 2020 14:05:51: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:05:51: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:05:59: 1000000 INFO @ Wed, 22 Jul 2020 14:06:06: 2000000 INFO @ Wed, 22 Jul 2020 14:06:13: 3000000 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 Jul 2020 14:06:20: 4000000 INFO @ Wed, 22 Jul 2020 14:06:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.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 Jul 2020 14:06:21: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:06:21: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:06:24: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:06:24: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:06:24: #1 total tags in treatment: 2164797 INFO @ Wed, 22 Jul 2020 14:06:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:06:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:06:24: #1 tags after filtering in treatment: 1925792 INFO @ Wed, 22 Jul 2020 14:06:24: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 14:06:24: #1 finished! INFO @ Wed, 22 Jul 2020 14:06:24: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:06:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:06:24: #2 number of paired peaks: 33 WARNING @ Wed, 22 Jul 2020 14:06:24: 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 Jul 2020 14:06:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.05_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/SRX8036518/SRX8036518.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:06:29: 1000000 INFO @ Wed, 22 Jul 2020 14:06:37: 2000000 INFO @ Wed, 22 Jul 2020 14:06:44: 3000000 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 Jul 2020 14:06:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.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 Jul 2020 14:06:51: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:06:51: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:06:52: 4000000 INFO @ Wed, 22 Jul 2020 14:06:55: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:06:55: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:06:55: #1 total tags in treatment: 2164797 INFO @ Wed, 22 Jul 2020 14:06:55: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:06:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:06:55: #1 tags after filtering in treatment: 1925792 INFO @ Wed, 22 Jul 2020 14:06:55: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 14:06:55: #1 finished! INFO @ Wed, 22 Jul 2020 14:06:55: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:06:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:06:55: #2 number of paired peaks: 33 WARNING @ Wed, 22 Jul 2020 14:06:55: 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 Jul 2020 14:06:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.10_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/SRX8036518/SRX8036518.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:06:59: 1000000 INFO @ Wed, 22 Jul 2020 14:07:06: 2000000 INFO @ Wed, 22 Jul 2020 14:07:14: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:07:21: 4000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:07:24: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:07:24: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:07:24: #1 total tags in treatment: 2164797 INFO @ Wed, 22 Jul 2020 14:07:24: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:07:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:07:24: #1 tags after filtering in treatment: 1925792 INFO @ Wed, 22 Jul 2020 14:07:24: #1 Redundant rate of treatment: 0.11 INFO @ Wed, 22 Jul 2020 14:07:24: #1 finished! INFO @ Wed, 22 Jul 2020 14:07:24: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:07:24: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:07:25: #2 number of paired peaks: 33 WARNING @ Wed, 22 Jul 2020 14:07:25: 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 Jul 2020 14:07:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.20_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/SRX8036518/SRX8036518.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036518/SRX8036518.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling