Job ID = 14521734 SRX = SRX9399164 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8766862 spots for SRR12935445/SRR12935445.sra Written 8766862 spots for SRR12935445/SRR12935445.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: 00:12:08 8766862 reads; of these: 8766862 (100.00%) were paired; of these: 5412908 (61.74%) aligned concordantly 0 times 3061096 (34.92%) aligned concordantly exactly 1 time 292858 (3.34%) aligned concordantly >1 times ---- 5412908 pairs aligned concordantly 0 times; of these: 3421860 (63.22%) aligned discordantly 1 time ---- 1991048 pairs aligned 0 times concordantly or discordantly; of these: 3982096 mates make up the pairs; of these: 3038913 (76.31%) aligned 0 times 314077 (7.89%) aligned exactly 1 time 629106 (15.80%) aligned >1 times 82.67% overall alignment rate Time searching: 00:12:08 Overall time: 00:12:08 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_sort_core] merging from 12 files... [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] 1515135 / 6611142 = 0.2292 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 21:49:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.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 21:49:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:49:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:49:13: 1000000 INFO @ Sat, 15 Jan 2022 21:49:21: 2000000 INFO @ Sat, 15 Jan 2022 21:49:30: 3000000 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 21:49:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.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 21:49:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:49:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:49:38: 4000000 INFO @ Sat, 15 Jan 2022 21:49:43: 1000000 INFO @ Sat, 15 Jan 2022 21:49:47: 5000000 INFO @ Sat, 15 Jan 2022 21:49:52: 2000000 INFO @ Sat, 15 Jan 2022 21:49:56: 6000000 INFO @ Sat, 15 Jan 2022 21:50:01: 3000000 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 21:50:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.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 21:50:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:50:06: 7000000 INFO @ Sat, 15 Jan 2022 21:50:09: 4000000 INFO @ Sat, 15 Jan 2022 21:50:12: 1000000 INFO @ Sat, 15 Jan 2022 21:50:15: 8000000 INFO @ Sat, 15 Jan 2022 21:50:18: 5000000 INFO @ Sat, 15 Jan 2022 21:50:20: 2000000 INFO @ Sat, 15 Jan 2022 21:50:24: 9000000 INFO @ Sat, 15 Jan 2022 21:50:27: 6000000 INFO @ Sat, 15 Jan 2022 21:50:28: 3000000 INFO @ Sat, 15 Jan 2022 21:50:33: 10000000 INFO @ Sat, 15 Jan 2022 21:50:35: 4000000 INFO @ Sat, 15 Jan 2022 21:50:36: 7000000 INFO @ Sat, 15 Jan 2022 21:50:42: 11000000 INFO @ Sat, 15 Jan 2022 21:50:43: 5000000 INFO @ Sat, 15 Jan 2022 21:50:45: 8000000 INFO @ Sat, 15 Jan 2022 21:50:46: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:50:46: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:50:46: #1 total tags in treatment: 2568596 INFO @ Sat, 15 Jan 2022 21:50:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:50:46: #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 21:50:47: #1 tags after filtering in treatment: 1979384 INFO @ Sat, 15 Jan 2022 21:50:47: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 21:50:47: #1 finished! INFO @ Sat, 15 Jan 2022 21:50:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:50:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:50:47: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:50:47: 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 21:50:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.05_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/SRX9399164/SRX9399164.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:50:51: 6000000 INFO @ Sat, 15 Jan 2022 21:50:53: 9000000 INFO @ Sat, 15 Jan 2022 21:50:58: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:51:02: 10000000 INFO @ Sat, 15 Jan 2022 21:51:06: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:51:11: 11000000 INFO @ Sat, 15 Jan 2022 21:51:13: 9000000 INFO @ Sat, 15 Jan 2022 21:51:15: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:51:15: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:51:15: #1 total tags in treatment: 2568596 INFO @ Sat, 15 Jan 2022 21:51:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:15: #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 21:51:15: #1 tags after filtering in treatment: 1979384 INFO @ Sat, 15 Jan 2022 21:51:15: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 21:51:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:15: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:51:15: 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 21:51:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.10_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/SRX9399164/SRX9399164.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:51:20: 10000000 INFO @ Sat, 15 Jan 2022 21:51:27: 11000000 INFO @ Sat, 15 Jan 2022 21:51:30: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:51:30: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:51:30: #1 total tags in treatment: 2568596 INFO @ Sat, 15 Jan 2022 21:51:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:30: #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 21:51:30: #1 tags after filtering in treatment: 1979384 INFO @ Sat, 15 Jan 2022 21:51:30: #1 Redundant rate of treatment: 0.23 INFO @ Sat, 15 Jan 2022 21:51:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:30: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:51:30: 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 21:51:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.20_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/SRX9399164/SRX9399164.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399164/SRX9399164.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling