Job ID = 14521700 SRX = SRX9399150 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7004155 spots for SRR12935431/SRR12935431.sra Written 7004155 spots for SRR12935431/SRR12935431.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: 00:02:29 7004155 reads; of these: 7004155 (100.00%) were paired; of these: 1466672 (20.94%) aligned concordantly 0 times 5025202 (71.75%) aligned concordantly exactly 1 time 512281 (7.31%) aligned concordantly >1 times ---- 1466672 pairs aligned concordantly 0 times; of these: 143244 (9.77%) aligned discordantly 1 time ---- 1323428 pairs aligned 0 times concordantly or discordantly; of these: 2646856 mates make up the pairs; of these: 2330277 (88.04%) aligned 0 times 249280 (9.42%) aligned exactly 1 time 67299 (2.54%) aligned >1 times 83.37% overall alignment rate Time searching: 00:02:29 Overall time: 00:02:29 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] 882915 / 5668080 = 0.1558 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 21:31:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.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 21:31:19: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:31:19: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:31:24: 1000000 INFO @ Sat, 15 Jan 2022 21:31:29: 2000000 INFO @ Sat, 15 Jan 2022 21:31:35: 3000000 INFO @ Sat, 15 Jan 2022 21:31:40: 4000000 INFO @ Sat, 15 Jan 2022 21:31:45: 5000000 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 21:31:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.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 21:31:49: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:31:49: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:31:50: 6000000 INFO @ Sat, 15 Jan 2022 21:31:54: 1000000 INFO @ Sat, 15 Jan 2022 21:31:55: 7000000 INFO @ Sat, 15 Jan 2022 21:32:00: 2000000 INFO @ Sat, 15 Jan 2022 21:32:00: 8000000 INFO @ Sat, 15 Jan 2022 21:32:05: 3000000 INFO @ Sat, 15 Jan 2022 21:32:05: 9000000 INFO @ Sat, 15 Jan 2022 21:32:10: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:32:10: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:32:10: #1 total tags in treatment: 4666677 INFO @ Sat, 15 Jan 2022 21:32:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:32:10: #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 21:32:10: #1 tags after filtering in treatment: 3222745 INFO @ Sat, 15 Jan 2022 21:32:10: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:32:10: #1 finished! INFO @ Sat, 15 Jan 2022 21:32:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:32:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:32:10: 4000000 INFO @ Sat, 15 Jan 2022 21:32:10: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:32:10: Too few paired peaks (0) 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 21:32:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.05_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/SRX9399150/SRX9399150.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:32:15: 5000000 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 21:32:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.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 21:32:19: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:32:19: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:32:20: 6000000 INFO @ Sat, 15 Jan 2022 21:32:24: 1000000 INFO @ Sat, 15 Jan 2022 21:32:26: 7000000 INFO @ Sat, 15 Jan 2022 21:32:28: 2000000 INFO @ Sat, 15 Jan 2022 21:32:31: 8000000 INFO @ Sat, 15 Jan 2022 21:32:33: 3000000 INFO @ Sat, 15 Jan 2022 21:32:36: 9000000 INFO @ Sat, 15 Jan 2022 21:32:37: 4000000 INFO @ Sat, 15 Jan 2022 21:32:41: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:32:41: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:32:41: #1 total tags in treatment: 4666677 INFO @ Sat, 15 Jan 2022 21:32:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:32:41: #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 21:32:41: #1 tags after filtering in treatment: 3222745 INFO @ Sat, 15 Jan 2022 21:32:41: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:32:41: #1 finished! INFO @ Sat, 15 Jan 2022 21:32:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:32:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:32:41: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:32:41: Too few paired peaks (0) 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 21:32:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.10_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/SRX9399150/SRX9399150.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:32:42: 5000000 INFO @ Sat, 15 Jan 2022 21:32:46: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:32:51: 7000000 INFO @ Sat, 15 Jan 2022 21:32:55: 8000000 INFO @ Sat, 15 Jan 2022 21:32:59: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:33:03: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:33:03: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:33:03: #1 total tags in treatment: 4666677 INFO @ Sat, 15 Jan 2022 21:33:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:33:03: #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 21:33:03: #1 tags after filtering in treatment: 3222745 INFO @ Sat, 15 Jan 2022 21:33:03: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 21:33:03: #1 finished! INFO @ Sat, 15 Jan 2022 21:33:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:33:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:33:03: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:33:03: Too few paired peaks (0) 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 21:33:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.20_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/SRX9399150/SRX9399150.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399150/SRX9399150.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling