Job ID = 14521539 SRX = SRX9493767 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3880926 spots for SRR13043889/SRR13043889.sra Written 3880926 spots for SRR13043889/SRR13043889.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: 00:03:08 3880926 reads; of these: 3880926 (100.00%) were paired; of these: 118399 (3.05%) aligned concordantly 0 times 3233404 (83.32%) aligned concordantly exactly 1 time 529123 (13.63%) aligned concordantly >1 times ---- 118399 pairs aligned concordantly 0 times; of these: 32689 (27.61%) aligned discordantly 1 time ---- 85710 pairs aligned 0 times concordantly or discordantly; of these: 171420 mates make up the pairs; of these: 117868 (68.76%) aligned 0 times 32294 (18.84%) aligned exactly 1 time 21258 (12.40%) aligned >1 times 98.48% overall alignment rate Time searching: 00:03:08 Overall time: 00:03:08 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] 91661 / 3785471 = 0.0242 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 21:14:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.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 21:14:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:14:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:14:20: 1000000 INFO @ Sat, 15 Jan 2022 21:14:28: 2000000 INFO @ Sat, 15 Jan 2022 21:14:35: 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 21:14:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.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 21:14:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:14:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:14:43: 4000000 INFO @ Sat, 15 Jan 2022 21:14:51: 5000000 INFO @ Sat, 15 Jan 2022 21:14:52: 1000000 INFO @ Sat, 15 Jan 2022 21:15:00: 6000000 INFO @ Sat, 15 Jan 2022 21:15:01: 2000000 INFO @ Sat, 15 Jan 2022 21:15:09: 7000000 INFO @ Sat, 15 Jan 2022 21:15:09: 3000000 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 21:15:12: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:15:12: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:15:12: #1 total tags in treatment: 3671314 INFO @ Sat, 15 Jan 2022 21:15:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:15:12: #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 21:15:12: #1 tags after filtering in treatment: 3110188 INFO @ Sat, 15 Jan 2022 21:15:12: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:15:12: #1 finished! INFO @ Sat, 15 Jan 2022 21:15:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:15:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:15:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.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 21:15:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:15:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:15:12: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:15:12: Too few paired peaks (29) 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 21:15:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.05_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/SRX9493767/SRX9493767.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:15:17: 4000000 INFO @ Sat, 15 Jan 2022 21:15:21: 1000000 INFO @ Sat, 15 Jan 2022 21:15:24: 5000000 INFO @ Sat, 15 Jan 2022 21:15:30: 2000000 INFO @ Sat, 15 Jan 2022 21:15:32: 6000000 INFO @ Sat, 15 Jan 2022 21:15:38: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:15:40: 7000000 INFO @ Sat, 15 Jan 2022 21:15:44: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:15:44: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:15:44: #1 total tags in treatment: 3671314 INFO @ Sat, 15 Jan 2022 21:15:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:15:44: #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 21:15:44: #1 tags after filtering in treatment: 3110188 INFO @ Sat, 15 Jan 2022 21:15:44: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:15:44: #1 finished! INFO @ Sat, 15 Jan 2022 21:15:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:15:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:15:44: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:15:44: Too few paired peaks (29) 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 21:15:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.10_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/SRX9493767/SRX9493767.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:15:47: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:15:54: 5000000 INFO @ Sat, 15 Jan 2022 21:16:02: 6000000 INFO @ Sat, 15 Jan 2022 21:16:09: 7000000 INFO @ Sat, 15 Jan 2022 21:16:13: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 21:16:13: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 21:16:13: #1 total tags in treatment: 3671314 INFO @ Sat, 15 Jan 2022 21:16:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:16:13: #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 21:16:13: #1 tags after filtering in treatment: 3110188 INFO @ Sat, 15 Jan 2022 21:16:13: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:16:13: #1 finished! INFO @ Sat, 15 Jan 2022 21:16:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:16:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:16:13: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:16:13: Too few paired peaks (29) 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 21:16:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.20_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/SRX9493767/SRX9493767.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9493767/SRX9493767.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling