Job ID = 14519706 SRX = SRX9067187 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7282821 spots for SRR12580340/SRR12580340.sra Written 7282821 spots for SRR12580340/SRR12580340.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: 00:03:25 7282821 reads; of these: 7282821 (100.00%) were paired; of these: 910193 (12.50%) aligned concordantly 0 times 4991575 (68.54%) aligned concordantly exactly 1 time 1381053 (18.96%) aligned concordantly >1 times ---- 910193 pairs aligned concordantly 0 times; of these: 58409 (6.42%) aligned discordantly 1 time ---- 851784 pairs aligned 0 times concordantly or discordantly; of these: 1703568 mates make up the pairs; of these: 1571880 (92.27%) aligned 0 times 84623 (4.97%) aligned exactly 1 time 47065 (2.76%) aligned >1 times 89.21% overall alignment rate Time searching: 00:03:25 Overall time: 00:03:25 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] 2599535 / 6419959 = 0.4049 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 17:36:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.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 17:36:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:36:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:37:04: 1000000 INFO @ Sat, 15 Jan 2022 17:37:09: 2000000 INFO @ Sat, 15 Jan 2022 17:37:15: 3000000 INFO @ Sat, 15 Jan 2022 17:37:20: 4000000 INFO @ Sat, 15 Jan 2022 17:37:25: 5000000 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 17:37:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.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 17:37:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:37:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:37:31: 6000000 INFO @ Sat, 15 Jan 2022 17:37:34: 1000000 INFO @ Sat, 15 Jan 2022 17:37:37: 7000000 INFO @ Sat, 15 Jan 2022 17:37:39: 2000000 INFO @ Sat, 15 Jan 2022 17:37:41: #1 tag size is determined as 49 bps INFO @ Sat, 15 Jan 2022 17:37:41: #1 tag size = 49 INFO @ Sat, 15 Jan 2022 17:37:41: #1 total tags in treatment: 3783348 INFO @ Sat, 15 Jan 2022 17:37:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:37:41: #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 17:37:41: #1 tags after filtering in treatment: 2599580 INFO @ Sat, 15 Jan 2022 17:37:41: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 17:37:41: #1 finished! INFO @ Sat, 15 Jan 2022 17:37:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:37:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:37:41: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 17:37:41: Too few paired peaks (26) 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 17:37:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.05_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/SRX9067187/SRX9067187.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:37:44: 3000000 INFO @ Sat, 15 Jan 2022 17:37:49: 4000000 INFO @ Sat, 15 Jan 2022 17:37:54: 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 17:37:59: 6000000 INFO @ Sat, 15 Jan 2022 17:37:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.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 17:37:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:37:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:38:04: 7000000 INFO @ Sat, 15 Jan 2022 17:38:04: 1000000 INFO @ Sat, 15 Jan 2022 17:38:08: #1 tag size is determined as 49 bps INFO @ Sat, 15 Jan 2022 17:38:08: #1 tag size = 49 INFO @ Sat, 15 Jan 2022 17:38:08: #1 total tags in treatment: 3783348 INFO @ Sat, 15 Jan 2022 17:38:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:38:08: #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 17:38:08: #1 tags after filtering in treatment: 2599580 INFO @ Sat, 15 Jan 2022 17:38:08: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 17:38:08: #1 finished! INFO @ Sat, 15 Jan 2022 17:38:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:38:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:38:08: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 17:38:08: Too few paired peaks (26) 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 17:38:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.10_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/SRX9067187/SRX9067187.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:38:10: 2000000 INFO @ Sat, 15 Jan 2022 17:38:15: 3000000 INFO @ Sat, 15 Jan 2022 17:38:21: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:38:26: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:38:32: 6000000 INFO @ Sat, 15 Jan 2022 17:38:37: 7000000 INFO @ Sat, 15 Jan 2022 17:38:41: #1 tag size is determined as 49 bps INFO @ Sat, 15 Jan 2022 17:38:41: #1 tag size = 49 INFO @ Sat, 15 Jan 2022 17:38:41: #1 total tags in treatment: 3783348 INFO @ Sat, 15 Jan 2022 17:38:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:38:41: #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 17:38:42: #1 tags after filtering in treatment: 2599580 INFO @ Sat, 15 Jan 2022 17:38:42: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 17:38:42: #1 finished! INFO @ Sat, 15 Jan 2022 17:38:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:38:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:38:42: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 17:38:42: Too few paired peaks (26) 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 17:38:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.20_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/SRX9067187/SRX9067187.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067187/SRX9067187.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling