Job ID = 14521625 SRX = SRX9399127 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7717220 spots for SRR12935408/SRR12935408.sra Written 7717220 spots for SRR12935408/SRR12935408.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: 00:03:13 7717220 reads; of these: 7717220 (100.00%) were paired; of these: 1119994 (14.51%) aligned concordantly 0 times 5353206 (69.37%) aligned concordantly exactly 1 time 1244020 (16.12%) aligned concordantly >1 times ---- 1119994 pairs aligned concordantly 0 times; of these: 172327 (15.39%) aligned discordantly 1 time ---- 947667 pairs aligned 0 times concordantly or discordantly; of these: 1895334 mates make up the pairs; of these: 1514129 (79.89%) aligned 0 times 256409 (13.53%) aligned exactly 1 time 124796 (6.58%) aligned >1 times 90.19% overall alignment rate Time searching: 00:03:13 Overall time: 00:03:13 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 8 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] 1557120 / 6750810 = 0.2307 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 21:21:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.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 21:21:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:21:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:21:46: 1000000 INFO @ Sat, 15 Jan 2022 21:21:50: 2000000 INFO @ Sat, 15 Jan 2022 21:21:54: 3000000 INFO @ Sat, 15 Jan 2022 21:21:58: 4000000 INFO @ Sat, 15 Jan 2022 21:22:02: 5000000 INFO @ Sat, 15 Jan 2022 21:22:06: 6000000 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 21:22:10: 7000000 INFO @ Sat, 15 Jan 2022 21:22:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.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 21:22:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:22:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:22:14: 8000000 INFO @ Sat, 15 Jan 2022 21:22:16: 1000000 INFO @ Sat, 15 Jan 2022 21:22:19: 9000000 INFO @ Sat, 15 Jan 2022 21:22:21: 2000000 INFO @ Sat, 15 Jan 2022 21:22:23: 10000000 INFO @ Sat, 15 Jan 2022 21:22:25: 3000000 INFO @ Sat, 15 Jan 2022 21:22:27: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:22:27: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:22:27: #1 total tags in treatment: 5054349 INFO @ Sat, 15 Jan 2022 21:22:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:22:27: #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 21:22:27: #1 tags after filtering in treatment: 3299955 INFO @ Sat, 15 Jan 2022 21:22:27: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:22:27: #1 finished! INFO @ Sat, 15 Jan 2022 21:22:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:22:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:22:27: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 21:22:27: Too few paired peaks (17) 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 21:22:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.05_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/SRX9399127/SRX9399127.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:22:29: 4000000 INFO @ Sat, 15 Jan 2022 21:22:34: 5000000 INFO @ Sat, 15 Jan 2022 21:22:38: 6000000 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 21:22:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.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 21:22:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:22:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:22:42: 7000000 INFO @ Sat, 15 Jan 2022 21:22:46: 8000000 INFO @ Sat, 15 Jan 2022 21:22:47: 1000000 INFO @ Sat, 15 Jan 2022 21:22:51: 9000000 INFO @ Sat, 15 Jan 2022 21:22:52: 2000000 INFO @ Sat, 15 Jan 2022 21:22:55: 10000000 INFO @ Sat, 15 Jan 2022 21:22:57: 3000000 INFO @ Sat, 15 Jan 2022 21:22:59: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:22:59: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:22:59: #1 total tags in treatment: 5054349 INFO @ Sat, 15 Jan 2022 21:22:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:22:59: #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 21:22:59: #1 tags after filtering in treatment: 3299955 INFO @ Sat, 15 Jan 2022 21:22:59: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:22:59: #1 finished! INFO @ Sat, 15 Jan 2022 21:22:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:22:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:22:59: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 21:22:59: Too few paired peaks (17) 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 21:22:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.10_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/SRX9399127/SRX9399127.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:23:02: 4000000 INFO @ Sat, 15 Jan 2022 21:23:06: 5000000 INFO @ Sat, 15 Jan 2022 21:23:11: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:23:16: 7000000 INFO @ Sat, 15 Jan 2022 21:23:21: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:23:26: 9000000 INFO @ Sat, 15 Jan 2022 21:23:30: 10000000 INFO @ Sat, 15 Jan 2022 21:23:34: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:23:34: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:23:34: #1 total tags in treatment: 5054349 INFO @ Sat, 15 Jan 2022 21:23:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:23:34: #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 21:23:34: #1 tags after filtering in treatment: 3299955 INFO @ Sat, 15 Jan 2022 21:23:34: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:23:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:23:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:23:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:23:35: #2 number of paired peaks: 17 WARNING @ Sat, 15 Jan 2022 21:23:35: Too few paired peaks (17) 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 21:23:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.20_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/SRX9399127/SRX9399127.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399127/SRX9399127.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling