Job ID = 14520817 SRX = SRX8245414 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6910259 spots for SRR11684625/SRR11684625.sra Written 6910259 spots for SRR11684625/SRR11684625.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: 00:03:49 6910259 reads; of these: 6910259 (100.00%) were paired; of these: 3195930 (46.25%) aligned concordantly 0 times 3247288 (46.99%) aligned concordantly exactly 1 time 467041 (6.76%) aligned concordantly >1 times ---- 3195930 pairs aligned concordantly 0 times; of these: 16269 (0.51%) aligned discordantly 1 time ---- 3179661 pairs aligned 0 times concordantly or discordantly; of these: 6359322 mates make up the pairs; of these: 3434234 (54.00%) aligned 0 times 2542929 (39.99%) aligned exactly 1 time 382159 (6.01%) aligned >1 times 75.15% overall alignment rate Time searching: 00:03:49 Overall time: 00:03:49 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] 33784 / 3729886 = 0.0091 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 20:03:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.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 20:03:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:03:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:03:29: 1000000 INFO @ Sat, 15 Jan 2022 20:03:34: 2000000 INFO @ Sat, 15 Jan 2022 20:03:39: 3000000 INFO @ Sat, 15 Jan 2022 20:03:44: 4000000 INFO @ Sat, 15 Jan 2022 20:03:49: 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 20:03:53: 6000000 INFO @ Sat, 15 Jan 2022 20:03:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.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 20:03:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:03:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:03:59: 7000000 INFO @ Sat, 15 Jan 2022 20:04:01: 1000000 INFO @ Sat, 15 Jan 2022 20:04:05: 8000000 INFO @ Sat, 15 Jan 2022 20:04:07: 2000000 INFO @ Sat, 15 Jan 2022 20:04:11: 9000000 INFO @ Sat, 15 Jan 2022 20:04:14: 3000000 INFO @ Sat, 15 Jan 2022 20:04:17: 10000000 INFO @ Sat, 15 Jan 2022 20:04:19: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:04:19: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:04:19: #1 total tags in treatment: 3680556 INFO @ Sat, 15 Jan 2022 20:04:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:04:19: #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 20:04:19: #1 tags after filtering in treatment: 3116322 INFO @ Sat, 15 Jan 2022 20:04:19: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:04:19: #1 finished! INFO @ Sat, 15 Jan 2022 20:04:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:04:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:04:19: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:04:19: Too few paired peaks (28) 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 20:04:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.05_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/SRX8245414/SRX8245414.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:04:21: 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 20:04:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.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 20:04:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:04:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:04:27: 5000000 INFO @ Sat, 15 Jan 2022 20:04:30: 1000000 INFO @ Sat, 15 Jan 2022 20:04:34: 6000000 INFO @ Sat, 15 Jan 2022 20:04:36: 2000000 INFO @ Sat, 15 Jan 2022 20:04:40: 7000000 INFO @ Sat, 15 Jan 2022 20:04:42: 3000000 INFO @ Sat, 15 Jan 2022 20:04:47: 8000000 INFO @ Sat, 15 Jan 2022 20:04:48: 4000000 INFO @ Sat, 15 Jan 2022 20:04:54: 5000000 INFO @ Sat, 15 Jan 2022 20:04:54: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:05:00: 6000000 INFO @ Sat, 15 Jan 2022 20:05:01: 10000000 INFO @ Sat, 15 Jan 2022 20:05:03: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:05:03: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:05:03: #1 total tags in treatment: 3680556 INFO @ Sat, 15 Jan 2022 20:05:03: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:05:03: #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 20:05:03: #1 tags after filtering in treatment: 3116322 INFO @ Sat, 15 Jan 2022 20:05:03: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:05:03: #1 finished! INFO @ Sat, 15 Jan 2022 20:05:03: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:05:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:05:03: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:05:03: Too few paired peaks (28) 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 20:05:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.10_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/SRX8245414/SRX8245414.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:05:05: 7000000 INFO @ Sat, 15 Jan 2022 20:05:11: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:05:16: 9000000 INFO @ Sat, 15 Jan 2022 20:05:21: 10000000 INFO @ Sat, 15 Jan 2022 20:05:23: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:05:23: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:05:23: #1 total tags in treatment: 3680556 INFO @ Sat, 15 Jan 2022 20:05:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:05:23: #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 20:05:23: #1 tags after filtering in treatment: 3116322 INFO @ Sat, 15 Jan 2022 20:05:23: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:05:23: #1 finished! INFO @ Sat, 15 Jan 2022 20:05:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:05:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:05:23: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 20:05:23: Too few paired peaks (28) 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 20:05:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.20_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/SRX8245414/SRX8245414.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8245414/SRX8245414.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling