Job ID = 14521809 SRX = SRX9399071 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3451179 spots for SRR12935352/SRR12935352.sra Written 3451179 spots for SRR12935352/SRR12935352.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: 00:02:56 3451179 reads; of these: 3451179 (100.00%) were paired; of these: 715389 (20.73%) aligned concordantly 0 times 2381418 (69.00%) aligned concordantly exactly 1 time 354372 (10.27%) aligned concordantly >1 times ---- 715389 pairs aligned concordantly 0 times; of these: 130567 (18.25%) aligned discordantly 1 time ---- 584822 pairs aligned 0 times concordantly or discordantly; of these: 1169644 mates make up the pairs; of these: 1028843 (87.96%) aligned 0 times 91767 (7.85%) aligned exactly 1 time 49034 (4.19%) aligned >1 times 85.09% overall alignment rate Time searching: 00:02:56 Overall time: 00:02:56 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] 265165 / 2798816 = 0.0947 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 21:42:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.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 21:42:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:03: 1000000 INFO @ Sat, 15 Jan 2022 21:43:14: 2000000 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 21:43:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.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 21:43:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:43:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:25: 3000000 INFO @ Sat, 15 Jan 2022 21:43:33: 1000000 INFO @ Sat, 15 Jan 2022 21:43:37: 4000000 INFO @ Sat, 15 Jan 2022 21:43:42: 2000000 INFO @ Sat, 15 Jan 2022 21:43:48: 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 21:43:51: 3000000 INFO @ Sat, 15 Jan 2022 21:43:51: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:43:51: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:43:51: #1 total tags in treatment: 2474628 INFO @ Sat, 15 Jan 2022 21:43:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:51: #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 21:43:51: #1 tags after filtering in treatment: 1920077 INFO @ Sat, 15 Jan 2022 21:43:51: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 21:43:51: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:52: #2 number of paired peaks: 23 WARNING @ Sat, 15 Jan 2022 21:43:52: Too few paired peaks (23) 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 21:43:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.05_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/SRX9399071/SRX9399071.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:43:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.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 21:43:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:43:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:59: 4000000 INFO @ Sat, 15 Jan 2022 21:44:03: 1000000 INFO @ Sat, 15 Jan 2022 21:44:07: 5000000 INFO @ Sat, 15 Jan 2022 21:44:09: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:44:09: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:44:09: #1 total tags in treatment: 2474628 INFO @ Sat, 15 Jan 2022 21:44:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:44:09: #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 21:44:10: #1 tags after filtering in treatment: 1920077 INFO @ Sat, 15 Jan 2022 21:44:10: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 21:44:10: #1 finished! INFO @ Sat, 15 Jan 2022 21:44:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:44:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:44:10: #2 number of paired peaks: 23 WARNING @ Sat, 15 Jan 2022 21:44:10: Too few paired peaks (23) 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 21:44:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.10_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/SRX9399071/SRX9399071.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:44:13: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:44:23: 3000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:44:32: 4000000 INFO @ Sat, 15 Jan 2022 21:44:42: 5000000 INFO @ Sat, 15 Jan 2022 21:44:45: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:44:45: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:44:45: #1 total tags in treatment: 2474628 INFO @ Sat, 15 Jan 2022 21:44:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:44:45: #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 21:44:45: #1 tags after filtering in treatment: 1920077 INFO @ Sat, 15 Jan 2022 21:44:45: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 15 Jan 2022 21:44:45: #1 finished! INFO @ Sat, 15 Jan 2022 21:44:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:44:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:44:45: #2 number of paired peaks: 23 WARNING @ Sat, 15 Jan 2022 21:44:45: Too few paired peaks (23) 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 21:44:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399071/SRX9399071.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling