Job ID = 14521813 SRX = SRX9399075 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4874605 spots for SRR12935356/SRR12935356.sra Written 4874605 spots for SRR12935356/SRR12935356.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: 00:03:24 4874605 reads; of these: 4874605 (100.00%) were paired; of these: 702791 (14.42%) aligned concordantly 0 times 3632555 (74.52%) aligned concordantly exactly 1 time 539259 (11.06%) aligned concordantly >1 times ---- 702791 pairs aligned concordantly 0 times; of these: 133770 (19.03%) aligned discordantly 1 time ---- 569021 pairs aligned 0 times concordantly or discordantly; of these: 1138042 mates make up the pairs; of these: 910724 (80.03%) aligned 0 times 166765 (14.65%) aligned exactly 1 time 60553 (5.32%) aligned >1 times 90.66% overall alignment rate Time searching: 00:03:24 Overall time: 00:03:24 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] 332663 / 4232528 = 0.0786 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 21:45:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.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 21:45:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:45:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:45:46: 1000000 INFO @ Sat, 15 Jan 2022 21:45:55: 2000000 INFO @ Sat, 15 Jan 2022 21:46:04: 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 21:46:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.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 21:46:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:46:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:46:13: 4000000 INFO @ Sat, 15 Jan 2022 21:46:16: 1000000 INFO @ Sat, 15 Jan 2022 21:46:22: 5000000 INFO @ Sat, 15 Jan 2022 21:46:23: 2000000 INFO @ Sat, 15 Jan 2022 21:46:31: 3000000 INFO @ Sat, 15 Jan 2022 21:46:31: 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 21:46:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.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 21:46:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:46:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:46:38: 4000000 INFO @ Sat, 15 Jan 2022 21:46:40: 7000000 INFO @ Sat, 15 Jan 2022 21:46:45: 1000000 INFO @ Sat, 15 Jan 2022 21:46:46: 5000000 INFO @ Sat, 15 Jan 2022 21:46:49: 8000000 INFO @ Sat, 15 Jan 2022 21:46:50: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:46:50: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:46:50: #1 total tags in treatment: 3840460 INFO @ Sat, 15 Jan 2022 21:46:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:46:50: #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 21:46:50: #1 tags after filtering in treatment: 2763935 INFO @ Sat, 15 Jan 2022 21:46:50: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 21:46:50: #1 finished! INFO @ Sat, 15 Jan 2022 21:46:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:46:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:46:50: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 21:46:50: Too few paired peaks (7) 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 21:46:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.05_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/SRX9399075/SRX9399075.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:46:53: 2000000 INFO @ Sat, 15 Jan 2022 21:46:53: 6000000 INFO @ Sat, 15 Jan 2022 21:47:00: 7000000 INFO @ Sat, 15 Jan 2022 21:47:01: 3000000 INFO @ Sat, 15 Jan 2022 21:47:07: 8000000 INFO @ Sat, 15 Jan 2022 21:47:08: 4000000 INFO @ Sat, 15 Jan 2022 21:47:08: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:47:08: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:47:08: #1 total tags in treatment: 3840460 INFO @ Sat, 15 Jan 2022 21:47:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:47:08: #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 21:47:08: #1 tags after filtering in treatment: 2763935 INFO @ Sat, 15 Jan 2022 21:47:08: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 21:47:08: #1 finished! INFO @ Sat, 15 Jan 2022 21:47:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:47:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:47:09: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 21:47:09: Too few paired peaks (7) 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 21:47:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.10_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/SRX9399075/SRX9399075.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:47:16: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:47:23: 6000000 INFO @ Sat, 15 Jan 2022 21:47:30: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:47:37: 8000000 INFO @ Sat, 15 Jan 2022 21:47:38: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:47:38: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:47:38: #1 total tags in treatment: 3840460 INFO @ Sat, 15 Jan 2022 21:47:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:47:38: #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 21:47:38: #1 tags after filtering in treatment: 2763935 INFO @ Sat, 15 Jan 2022 21:47:38: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 21:47:38: #1 finished! INFO @ Sat, 15 Jan 2022 21:47:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:47:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:47:39: #2 number of paired peaks: 7 WARNING @ Sat, 15 Jan 2022 21:47:39: Too few paired peaks (7) 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 21:47:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.20_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/SRX9399075/SRX9399075.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399075/SRX9399075.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling