Job ID = 14519781 SRX = SRX9390801 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10094795 spots for SRR12926696/SRR12926696.sra Written 10094795 spots for SRR12926696/SRR12926696.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: 00:07:39 10094795 reads; of these: 10094795 (100.00%) were paired; of these: 6940498 (68.75%) aligned concordantly 0 times 2011848 (19.93%) aligned concordantly exactly 1 time 1142449 (11.32%) aligned concordantly >1 times ---- 6940498 pairs aligned concordantly 0 times; of these: 845495 (12.18%) aligned discordantly 1 time ---- 6095003 pairs aligned 0 times concordantly or discordantly; of these: 12190006 mates make up the pairs; of these: 5841021 (47.92%) aligned 0 times 1909117 (15.66%) aligned exactly 1 time 4439868 (36.42%) aligned >1 times 71.07% overall alignment rate Time searching: 00:07:39 Overall time: 00:07:39 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] 1380974 / 3965894 = 0.3482 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 17:58:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.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 17:58:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:58:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:58:42: 1000000 INFO @ Sat, 15 Jan 2022 17:58:48: 2000000 INFO @ Sat, 15 Jan 2022 17:58:53: 3000000 INFO @ Sat, 15 Jan 2022 17:58:59: 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 17:59:05: 5000000 INFO @ Sat, 15 Jan 2022 17:59:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.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 17:59:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:59:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:59:10: 6000000 INFO @ Sat, 15 Jan 2022 17:59:12: 1000000 INFO @ Sat, 15 Jan 2022 17:59:16: 7000000 INFO @ Sat, 15 Jan 2022 17:59:17: 2000000 INFO @ Sat, 15 Jan 2022 17:59:22: 8000000 INFO @ Sat, 15 Jan 2022 17:59:23: 3000000 INFO @ Sat, 15 Jan 2022 17:59:27: 9000000 INFO @ Sat, 15 Jan 2022 17:59:29: 4000000 INFO @ Sat, 15 Jan 2022 17:59:33: 10000000 INFO @ Sat, 15 Jan 2022 17:59:34: 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 17:59:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.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 17:59:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:59:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:59:39: 6000000 INFO @ Sat, 15 Jan 2022 17:59:40: 11000000 INFO @ Sat, 15 Jan 2022 17:59:42: 1000000 INFO @ Sat, 15 Jan 2022 17:59:43: #1 tag size is determined as 70 bps INFO @ Sat, 15 Jan 2022 17:59:43: #1 tag size = 70 INFO @ Sat, 15 Jan 2022 17:59:43: #1 total tags in treatment: 1995170 INFO @ Sat, 15 Jan 2022 17:59:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:59:43: #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 17:59:43: #1 tags after filtering in treatment: 1261455 INFO @ Sat, 15 Jan 2022 17:59:43: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 17:59:43: #1 finished! INFO @ Sat, 15 Jan 2022 17:59:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:59:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:59:43: #2 number of paired peaks: 66 WARNING @ Sat, 15 Jan 2022 17:59:43: Too few paired peaks (66) 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 17:59:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.05_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/SRX9390801/SRX9390801.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:59:44: 7000000 INFO @ Sat, 15 Jan 2022 17:59:48: 2000000 INFO @ Sat, 15 Jan 2022 17:59:49: 8000000 INFO @ Sat, 15 Jan 2022 17:59:54: 9000000 INFO @ Sat, 15 Jan 2022 17:59:54: 3000000 INFO @ Sat, 15 Jan 2022 17:59:59: 10000000 INFO @ Sat, 15 Jan 2022 18:00:01: 4000000 INFO @ Sat, 15 Jan 2022 18:00:05: 11000000 INFO @ Sat, 15 Jan 2022 18:00:06: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:00:08: #1 tag size is determined as 70 bps INFO @ Sat, 15 Jan 2022 18:00:08: #1 tag size = 70 INFO @ Sat, 15 Jan 2022 18:00:08: #1 total tags in treatment: 1995170 INFO @ Sat, 15 Jan 2022 18:00:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:00:08: #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 18:00:08: #1 tags after filtering in treatment: 1261455 INFO @ Sat, 15 Jan 2022 18:00:08: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 18:00:08: #1 finished! INFO @ Sat, 15 Jan 2022 18:00:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:00:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:00:09: #2 number of paired peaks: 66 WARNING @ Sat, 15 Jan 2022 18:00:09: Too few paired peaks (66) 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 18:00:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.10_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/SRX9390801/SRX9390801.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:00:12: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:00:17: 7000000 INFO @ Sat, 15 Jan 2022 18:00:22: 8000000 INFO @ Sat, 15 Jan 2022 18:00:27: 9000000 INFO @ Sat, 15 Jan 2022 18:00:33: 10000000 INFO @ Sat, 15 Jan 2022 18:00:38: 11000000 INFO @ Sat, 15 Jan 2022 18:00:42: #1 tag size is determined as 70 bps INFO @ Sat, 15 Jan 2022 18:00:42: #1 tag size = 70 INFO @ Sat, 15 Jan 2022 18:00:42: #1 total tags in treatment: 1995170 INFO @ Sat, 15 Jan 2022 18:00:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:00:42: #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 18:00:42: #1 tags after filtering in treatment: 1261455 INFO @ Sat, 15 Jan 2022 18:00:42: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Jan 2022 18:00:42: #1 finished! INFO @ Sat, 15 Jan 2022 18:00:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:00:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:00:42: #2 number of paired peaks: 66 WARNING @ Sat, 15 Jan 2022 18:00:42: Too few paired peaks (66) 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 18:00:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.20_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/SRX9390801/SRX9390801.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9390801/SRX9390801.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling