Job ID = 14521005 SRX = SRX9397551 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4725719 spots for SRR12933800/SRR12933800.sra Written 4725719 spots for SRR12933800/SRR12933800.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: 00:02:32 4725719 reads; of these: 4725719 (100.00%) were paired; of these: 1709869 (36.18%) aligned concordantly 0 times 2374541 (50.25%) aligned concordantly exactly 1 time 641309 (13.57%) aligned concordantly >1 times ---- 1709869 pairs aligned concordantly 0 times; of these: 64877 (3.79%) aligned discordantly 1 time ---- 1644992 pairs aligned 0 times concordantly or discordantly; of these: 3289984 mates make up the pairs; of these: 3226874 (98.08%) aligned 0 times 13077 (0.40%) aligned exactly 1 time 50033 (1.52%) aligned >1 times 65.86% overall alignment rate Time searching: 00:02:32 Overall time: 00:02:32 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] 660956 / 3070046 = 0.2153 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 20:20:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.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 20:20:19: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:20:19: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:20:23: 1000000 INFO @ Sat, 15 Jan 2022 20:20:28: 2000000 INFO @ Sat, 15 Jan 2022 20:20:33: 3000000 INFO @ Sat, 15 Jan 2022 20:20:37: 4000000 INFO @ Sat, 15 Jan 2022 20:20:41: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:20:42: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:20:42: #1 total tags in treatment: 2364740 INFO @ Sat, 15 Jan 2022 20:20:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:20:42: #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 20:20:42: #1 tags after filtering in treatment: 1829033 INFO @ Sat, 15 Jan 2022 20:20:42: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 20:20:42: #1 finished! INFO @ Sat, 15 Jan 2022 20:20:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:20:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:20:42: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 20:20:42: Too few paired peaks (26) 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 20:20:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.05_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/SRX9397551/SRX9397551.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 20:20:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.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 20:20:49: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:20:49: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:20:54: 1000000 INFO @ Sat, 15 Jan 2022 20:20:59: 2000000 INFO @ Sat, 15 Jan 2022 20:21:04: 3000000 INFO @ Sat, 15 Jan 2022 20:21:09: 4000000 INFO @ Sat, 15 Jan 2022 20:21:14: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:21:14: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:21:14: #1 total tags in treatment: 2364740 INFO @ Sat, 15 Jan 2022 20:21:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:21:14: #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 20:21:14: #1 tags after filtering in treatment: 1829033 INFO @ Sat, 15 Jan 2022 20:21:14: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 20:21:14: #1 finished! INFO @ Sat, 15 Jan 2022 20:21:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:21:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:21:14: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 20:21:14: Too few paired peaks (26) 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 20:21:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.10_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/SRX9397551/SRX9397551.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 20:21:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.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 20:21:19: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:21:19: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:21:24: 1000000 INFO @ Sat, 15 Jan 2022 20:21:30: 2000000 INFO @ Sat, 15 Jan 2022 20:21:35: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:21:41: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:21:46: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:21:46: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:21:46: #1 total tags in treatment: 2364740 INFO @ Sat, 15 Jan 2022 20:21:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:21:46: #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 20:21:46: #1 tags after filtering in treatment: 1829033 INFO @ Sat, 15 Jan 2022 20:21:46: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 20:21:46: #1 finished! INFO @ Sat, 15 Jan 2022 20:21:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:21:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:21:46: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 20:21:46: Too few paired peaks (26) 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 20:21:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.20_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/SRX9397551/SRX9397551.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9397551/SRX9397551.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling