Job ID = 14520239 SRX = SRX9346311 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6211313 spots for SRR12880349/SRR12880349.sra Written 6211313 spots for SRR12880349/SRR12880349.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: 00:10:11 6211313 reads; of these: 6211313 (100.00%) were paired; of these: 115637 (1.86%) aligned concordantly 0 times 5564328 (89.58%) aligned concordantly exactly 1 time 531348 (8.55%) aligned concordantly >1 times ---- 115637 pairs aligned concordantly 0 times; of these: 31395 (27.15%) aligned discordantly 1 time ---- 84242 pairs aligned 0 times concordantly or discordantly; of these: 168484 mates make up the pairs; of these: 119747 (71.07%) aligned 0 times 38413 (22.80%) aligned exactly 1 time 10324 (6.13%) aligned >1 times 99.04% overall alignment rate Time searching: 00:10:11 Overall time: 00:10:11 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] 410721 / 6048886 = 0.0679 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 19:05:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.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 19:05:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:05:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:05:39: 1000000 INFO @ Sat, 15 Jan 2022 19:05:52: 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 19:05:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.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 19:05:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:05:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:06:06: 3000000 INFO @ Sat, 15 Jan 2022 19:06:12: 1000000 INFO @ Sat, 15 Jan 2022 19:06:19: 4000000 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 19:06:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.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 19:06:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:06:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:06:27: 2000000 INFO @ Sat, 15 Jan 2022 19:06:32: 5000000 INFO @ Sat, 15 Jan 2022 19:06:41: 1000000 INFO @ Sat, 15 Jan 2022 19:06:43: 3000000 INFO @ Sat, 15 Jan 2022 19:06:45: 6000000 INFO @ Sat, 15 Jan 2022 19:06:57: 2000000 INFO @ Sat, 15 Jan 2022 19:06:58: 7000000 INFO @ Sat, 15 Jan 2022 19:06:59: 4000000 INFO @ Sat, 15 Jan 2022 19:07:11: 3000000 INFO @ Sat, 15 Jan 2022 19:07:12: 8000000 INFO @ Sat, 15 Jan 2022 19:07:15: 5000000 INFO @ Sat, 15 Jan 2022 19:07:24: 4000000 INFO @ Sat, 15 Jan 2022 19:07:27: 9000000 INFO @ Sat, 15 Jan 2022 19:07:30: 6000000 INFO @ Sat, 15 Jan 2022 19:07:36: 5000000 INFO @ Sat, 15 Jan 2022 19:07:41: 10000000 INFO @ Sat, 15 Jan 2022 19:07:44: 7000000 INFO @ Sat, 15 Jan 2022 19:07:49: 6000000 INFO @ Sat, 15 Jan 2022 19:07:56: 11000000 INFO @ Sat, 15 Jan 2022 19:07:58: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:08:01: 7000000 INFO @ Sat, 15 Jan 2022 19:08:03: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:08:03: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:08:03: #1 total tags in treatment: 5685091 INFO @ Sat, 15 Jan 2022 19:08:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:08:03: #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 19:08:03: #1 tags after filtering in treatment: 3697772 INFO @ Sat, 15 Jan 2022 19:08:03: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 19:08:03: #1 finished! INFO @ Sat, 15 Jan 2022 19:08:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:08:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:08:03: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:08:03: 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 19:08:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.05_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/SRX9346311/SRX9346311.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:08:12: 8000000 INFO @ Sat, 15 Jan 2022 19:08:12: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:08:23: 9000000 INFO @ Sat, 15 Jan 2022 19:08:26: 10000000 INFO @ Sat, 15 Jan 2022 19:08:34: 10000000 INFO @ Sat, 15 Jan 2022 19:08:37: 11000000 INFO @ Sat, 15 Jan 2022 19:08:42: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:08:42: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:08:42: #1 total tags in treatment: 5685091 INFO @ Sat, 15 Jan 2022 19:08:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:08:42: #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 19:08:43: #1 tags after filtering in treatment: 3697772 INFO @ Sat, 15 Jan 2022 19:08:43: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 19:08:43: #1 finished! INFO @ Sat, 15 Jan 2022 19:08:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:08:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:08:43: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:08:43: 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 19:08:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.10_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/SRX9346311/SRX9346311.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:08:46: 11000000 INFO @ Sat, 15 Jan 2022 19:08:51: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:08:51: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:08:51: #1 total tags in treatment: 5685091 INFO @ Sat, 15 Jan 2022 19:08:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:08:51: #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 19:08:51: #1 tags after filtering in treatment: 3697772 INFO @ Sat, 15 Jan 2022 19:08:51: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 19:08:51: #1 finished! INFO @ Sat, 15 Jan 2022 19:08:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:08:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:08:51: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 19:08:51: 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 19:08:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.20_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/SRX9346311/SRX9346311.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9346311/SRX9346311.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling