Job ID = 14521624 SRX = SRX9399126 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7156943 spots for SRR12935407/SRR12935407.sra Written 7156943 spots for SRR12935407/SRR12935407.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: 00:04:41 7156943 reads; of these: 7156943 (100.00%) were paired; of these: 718892 (10.04%) aligned concordantly 0 times 5162133 (72.13%) aligned concordantly exactly 1 time 1275918 (17.83%) aligned concordantly >1 times ---- 718892 pairs aligned concordantly 0 times; of these: 96759 (13.46%) aligned discordantly 1 time ---- 622133 pairs aligned 0 times concordantly or discordantly; of these: 1244266 mates make up the pairs; of these: 1010244 (81.19%) aligned 0 times 158388 (12.73%) aligned exactly 1 time 75634 (6.08%) aligned >1 times 92.94% overall alignment rate Time searching: 00:04:41 Overall time: 00:04:41 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] 1384057 / 6521886 = 0.2122 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 21:25:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.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 21:25:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:36: 1000000 INFO @ Sat, 15 Jan 2022 21:25:47: 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 21:25:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.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 21:25:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:25:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:25:58: 3000000 INFO @ Sat, 15 Jan 2022 21:26:06: 1000000 INFO @ Sat, 15 Jan 2022 21:26:10: 4000000 INFO @ Sat, 15 Jan 2022 21:26:18: 2000000 INFO @ Sat, 15 Jan 2022 21:26:21: 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 21:26:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.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 21:26:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:26:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:26:30: 3000000 INFO @ Sat, 15 Jan 2022 21:26:33: 6000000 INFO @ Sat, 15 Jan 2022 21:26:33: 1000000 INFO @ Sat, 15 Jan 2022 21:26:42: 2000000 INFO @ Sat, 15 Jan 2022 21:26:42: 4000000 INFO @ Sat, 15 Jan 2022 21:26:44: 7000000 INFO @ Sat, 15 Jan 2022 21:26:50: 3000000 INFO @ Sat, 15 Jan 2022 21:26:55: 5000000 INFO @ Sat, 15 Jan 2022 21:26:56: 8000000 INFO @ Sat, 15 Jan 2022 21:26:58: 4000000 INFO @ Sat, 15 Jan 2022 21:27:06: 6000000 INFO @ Sat, 15 Jan 2022 21:27:06: 5000000 INFO @ Sat, 15 Jan 2022 21:27:07: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:27:14: 6000000 INFO @ Sat, 15 Jan 2022 21:27:18: 7000000 INFO @ Sat, 15 Jan 2022 21:27:19: 10000000 INFO @ Sat, 15 Jan 2022 21:27:22: 7000000 INFO @ Sat, 15 Jan 2022 21:27:25: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:27:25: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:27:25: #1 total tags in treatment: 5058833 INFO @ Sat, 15 Jan 2022 21:27:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:27:25: #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 21:27:25: #1 tags after filtering in treatment: 3312407 INFO @ Sat, 15 Jan 2022 21:27:25: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:27:25: #1 finished! INFO @ Sat, 15 Jan 2022 21:27:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:27:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:27:26: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:27:26: Too few paired peaks (16) 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 21:27:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.05_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/SRX9399126/SRX9399126.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:27:30: 8000000 INFO @ Sat, 15 Jan 2022 21:27:30: 8000000 INFO @ Sat, 15 Jan 2022 21:27:38: 9000000 INFO @ Sat, 15 Jan 2022 21:27:41: 9000000 INFO @ Sat, 15 Jan 2022 21:27:45: 10000000 INFO @ Sat, 15 Jan 2022 21:27:49: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:27:49: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:27:49: #1 total tags in treatment: 5058833 INFO @ Sat, 15 Jan 2022 21:27:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:27:49: #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 21:27:50: #1 tags after filtering in treatment: 3312407 INFO @ Sat, 15 Jan 2022 21:27:50: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:27:50: #1 finished! INFO @ Sat, 15 Jan 2022 21:27:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:27:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:27:50: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:27:50: Too few paired peaks (16) 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 21:27:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.20_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/SRX9399126/SRX9399126.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:27:53: 10000000 INFO @ Sat, 15 Jan 2022 21:27:58: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:27:58: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:27:58: #1 total tags in treatment: 5058833 INFO @ Sat, 15 Jan 2022 21:27:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:27:58: #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 21:27:59: #1 tags after filtering in treatment: 3312407 INFO @ Sat, 15 Jan 2022 21:27:59: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:27:59: #1 finished! INFO @ Sat, 15 Jan 2022 21:27:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:27:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:27:59: #2 number of paired peaks: 16 WARNING @ Sat, 15 Jan 2022 21:27:59: Too few paired peaks (16) 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 21:27:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.10_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/SRX9399126/SRX9399126.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399126/SRX9399126.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling