Job ID = 14519881 SRX = SRX9786297 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7661719 spots for SRR13362129/SRR13362129.sra Written 7661719 spots for SRR13362129/SRR13362129.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: 00:09:23 7661719 reads; of these: 7661719 (100.00%) were paired; of these: 999705 (13.05%) aligned concordantly 0 times 5407913 (70.58%) aligned concordantly exactly 1 time 1254101 (16.37%) aligned concordantly >1 times ---- 999705 pairs aligned concordantly 0 times; of these: 25651 (2.57%) aligned discordantly 1 time ---- 974054 pairs aligned 0 times concordantly or discordantly; of these: 1948108 mates make up the pairs; of these: 1376555 (70.66%) aligned 0 times 453351 (23.27%) aligned exactly 1 time 118202 (6.07%) aligned >1 times 91.02% overall alignment rate Time searching: 00:09:23 Overall time: 00:09:23 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] 717466 / 6684524 = 0.1073 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 18:12:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.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 18:12:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:12:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:12:43: 1000000 INFO @ Sat, 15 Jan 2022 18:12:50: 2000000 INFO @ Sat, 15 Jan 2022 18:12:56: 3000000 INFO @ Sat, 15 Jan 2022 18:13:02: 4000000 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 18:13:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.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 18:13:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:13:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:13:07: 5000000 INFO @ Sat, 15 Jan 2022 18:13:13: 6000000 INFO @ Sat, 15 Jan 2022 18:13:14: 1000000 INFO @ Sat, 15 Jan 2022 18:13:19: 7000000 INFO @ Sat, 15 Jan 2022 18:13:21: 2000000 INFO @ Sat, 15 Jan 2022 18:13:25: 8000000 INFO @ Sat, 15 Jan 2022 18:13:28: 3000000 INFO @ Sat, 15 Jan 2022 18:13:31: 9000000 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 18:13:34: 4000000 INFO @ Sat, 15 Jan 2022 18:13:36: 10000000 INFO @ Sat, 15 Jan 2022 18:13:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.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 18:13:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:13:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:13:42: 5000000 INFO @ Sat, 15 Jan 2022 18:13:43: 11000000 INFO @ Sat, 15 Jan 2022 18:13:43: 1000000 INFO @ Sat, 15 Jan 2022 18:13:49: 6000000 INFO @ Sat, 15 Jan 2022 18:13:49: 2000000 INFO @ Sat, 15 Jan 2022 18:13:49: 12000000 INFO @ Sat, 15 Jan 2022 18:13:52: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 18:13:52: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 18:13:52: #1 total tags in treatment: 5945039 INFO @ Sat, 15 Jan 2022 18:13:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:13:52: #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 18:13:52: #1 tags after filtering in treatment: 3568522 INFO @ Sat, 15 Jan 2022 18:13:52: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 18:13:52: #1 finished! INFO @ Sat, 15 Jan 2022 18:13:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:13:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:13:53: #2 number of paired peaks: 71 WARNING @ Sat, 15 Jan 2022 18:13:53: Too few paired peaks (71) 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 18:13:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.05_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/SRX9786297/SRX9786297.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:13:55: 3000000 INFO @ Sat, 15 Jan 2022 18:13:56: 7000000 INFO @ Sat, 15 Jan 2022 18:14:00: 4000000 INFO @ Sat, 15 Jan 2022 18:14:03: 8000000 INFO @ Sat, 15 Jan 2022 18:14:06: 5000000 INFO @ Sat, 15 Jan 2022 18:14:10: 9000000 INFO @ Sat, 15 Jan 2022 18:14:11: 6000000 INFO @ Sat, 15 Jan 2022 18:14:17: 7000000 INFO @ Sat, 15 Jan 2022 18:14:18: 10000000 INFO @ Sat, 15 Jan 2022 18:14:22: 8000000 INFO @ Sat, 15 Jan 2022 18:14:25: 11000000 INFO @ Sat, 15 Jan 2022 18:14:28: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:14:32: 12000000 INFO @ Sat, 15 Jan 2022 18:14:33: 10000000 INFO @ Sat, 15 Jan 2022 18:14:35: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 18:14:35: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 18:14:35: #1 total tags in treatment: 5945039 INFO @ Sat, 15 Jan 2022 18:14:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:14:35: #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 18:14:35: #1 tags after filtering in treatment: 3568522 INFO @ Sat, 15 Jan 2022 18:14:35: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 18:14:35: #1 finished! INFO @ Sat, 15 Jan 2022 18:14:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:14:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:14:36: #2 number of paired peaks: 71 WARNING @ Sat, 15 Jan 2022 18:14:36: Too few paired peaks (71) 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 18:14:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.10_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/SRX9786297/SRX9786297.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:14:39: 11000000 INFO @ Sat, 15 Jan 2022 18:14:44: 12000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:14:47: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 18:14:47: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 18:14:47: #1 total tags in treatment: 5945039 INFO @ Sat, 15 Jan 2022 18:14:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:14:47: #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 18:14:47: #1 tags after filtering in treatment: 3568522 INFO @ Sat, 15 Jan 2022 18:14:47: #1 Redundant rate of treatment: 0.40 INFO @ Sat, 15 Jan 2022 18:14:47: #1 finished! INFO @ Sat, 15 Jan 2022 18:14:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:14:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:14:47: #2 number of paired peaks: 71 WARNING @ Sat, 15 Jan 2022 18:14:47: Too few paired peaks (71) 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 18:14:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.20_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/SRX9786297/SRX9786297.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9786297/SRX9786297.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling