Job ID = 14520821 SRX = SRX8245418 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4538401 spots for SRR11684629/SRR11684629.sra Written 4538401 spots for SRR11684629/SRR11684629.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: 00:02:23 4538401 reads; of these: 4538401 (100.00%) were paired; of these: 1985094 (43.74%) aligned concordantly 0 times 2315388 (51.02%) aligned concordantly exactly 1 time 237919 (5.24%) aligned concordantly >1 times ---- 1985094 pairs aligned concordantly 0 times; of these: 20088 (1.01%) aligned discordantly 1 time ---- 1965006 pairs aligned 0 times concordantly or discordantly; of these: 3930012 mates make up the pairs; of these: 2176390 (55.38%) aligned 0 times 1573224 (40.03%) aligned exactly 1 time 180398 (4.59%) aligned >1 times 76.02% overall alignment rate Time searching: 00:02:23 Overall time: 00:02:23 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] 15845 / 2573001 = 0.0062 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:00:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.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 @ Sat, 15 Jan 2022 20:00:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:00:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:00:08: 1000000 INFO @ Sat, 15 Jan 2022 20:00:14: 2000000 INFO @ Sat, 15 Jan 2022 20:00:21: 3000000 INFO @ Sat, 15 Jan 2022 20:00:27: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:00:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.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 @ Sat, 15 Jan 2022 20:00:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:00:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:00:34: 5000000 INFO @ Sat, 15 Jan 2022 20:00:38: 1000000 INFO @ Sat, 15 Jan 2022 20:00:41: 6000000 INFO @ Sat, 15 Jan 2022 20:00:46: 2000000 INFO @ Sat, 15 Jan 2022 20:00:47: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:00:47: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:00:47: #1 total tags in treatment: 2537547 INFO @ Sat, 15 Jan 2022 20:00:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:00:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:00:47: #1 tags after filtering in treatment: 2279408 INFO @ Sat, 15 Jan 2022 20:00:47: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 20:00:47: #1 finished! INFO @ Sat, 15 Jan 2022 20:00:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:00:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:00:47: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:00:47: Too few paired peaks (27) 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 @ Sat, 15 Jan 2022 20:00:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:00:52: 3000000 INFO @ Sat, 15 Jan 2022 20:00:59: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 20:01:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.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 @ Sat, 15 Jan 2022 20:01:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:01:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:01:06: 5000000 INFO @ Sat, 15 Jan 2022 20:01:08: 1000000 INFO @ Sat, 15 Jan 2022 20:01:13: 6000000 INFO @ Sat, 15 Jan 2022 20:01:14: 2000000 INFO @ Sat, 15 Jan 2022 20:01:19: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:01:19: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:01:19: #1 total tags in treatment: 2537547 INFO @ Sat, 15 Jan 2022 20:01:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:01:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:01:19: #1 tags after filtering in treatment: 2279408 INFO @ Sat, 15 Jan 2022 20:01:19: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 20:01:19: #1 finished! INFO @ Sat, 15 Jan 2022 20:01:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:01:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:01:19: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:01:19: Too few paired peaks (27) 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 @ Sat, 15 Jan 2022 20:01:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:01:20: 3000000 INFO @ Sat, 15 Jan 2022 20:01:26: 4000000 INFO @ Sat, 15 Jan 2022 20:01:31: 5000000 INFO @ Sat, 15 Jan 2022 20:01:37: 6000000 INFO @ Sat, 15 Jan 2022 20:01:41: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:01:41: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:01:41: #1 total tags in treatment: 2537547 INFO @ Sat, 15 Jan 2022 20:01:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:01:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 20:01:41: #1 tags after filtering in treatment: 2279408 INFO @ Sat, 15 Jan 2022 20:01:41: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 20:01:41: #1 finished! INFO @ Sat, 15 Jan 2022 20:01:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:01:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:01:41: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 20:01:41: Too few paired peaks (27) 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 @ Sat, 15 Jan 2022 20:01:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.20_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/SRX8245418/SRX8245418.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245418/SRX8245418.20_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。