Job ID = 14521638 SRX = SRX9399130 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7521605 spots for SRR12935411/SRR12935411.sra Written 7521605 spots for SRR12935411/SRR12935411.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: 00:04:36 7521605 reads; of these: 7521605 (100.00%) were paired; of these: 626923 (8.33%) aligned concordantly 0 times 5470015 (72.72%) aligned concordantly exactly 1 time 1424667 (18.94%) aligned concordantly >1 times ---- 626923 pairs aligned concordantly 0 times; of these: 97785 (15.60%) aligned discordantly 1 time ---- 529138 pairs aligned 0 times concordantly or discordantly; of these: 1058276 mates make up the pairs; of these: 755611 (71.40%) aligned 0 times 205827 (19.45%) aligned exactly 1 time 96838 (9.15%) aligned >1 times 94.98% overall alignment rate Time searching: 00:04:36 Overall time: 00:04:36 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] 1290140 / 6976998 = 0.1849 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 21:27:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.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 21:27:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:27:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:27:53: 1000000 INFO @ Sat, 15 Jan 2022 21:28:01: 2000000 INFO @ Sat, 15 Jan 2022 21:28:09: 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 21:28:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.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 21:28:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:28:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:28:16: 4000000 INFO @ Sat, 15 Jan 2022 21:28:24: 5000000 INFO @ Sat, 15 Jan 2022 21:28:25: 1000000 INFO @ Sat, 15 Jan 2022 21:28:32: 6000000 INFO @ Sat, 15 Jan 2022 21:28:32: 2000000 INFO @ Sat, 15 Jan 2022 21:28:39: 7000000 INFO @ Sat, 15 Jan 2022 21:28:40: 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 21:28:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.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 21:28:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:28:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:28:47: 8000000 INFO @ Sat, 15 Jan 2022 21:28:48: 4000000 INFO @ Sat, 15 Jan 2022 21:28:54: 1000000 INFO @ Sat, 15 Jan 2022 21:28:55: 9000000 INFO @ Sat, 15 Jan 2022 21:28:56: 5000000 INFO @ Sat, 15 Jan 2022 21:29:02: 2000000 INFO @ Sat, 15 Jan 2022 21:29:03: 10000000 INFO @ Sat, 15 Jan 2022 21:29:04: 6000000 INFO @ Sat, 15 Jan 2022 21:29:10: 3000000 INFO @ Sat, 15 Jan 2022 21:29:11: 11000000 INFO @ Sat, 15 Jan 2022 21:29:11: 7000000 INFO @ Sat, 15 Jan 2022 21:29:16: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:29:16: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:29:16: #1 total tags in treatment: 5607759 INFO @ Sat, 15 Jan 2022 21:29:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:16: #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 21:29:16: #1 tags after filtering in treatment: 3636270 INFO @ Sat, 15 Jan 2022 21:29:16: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:29:16: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:16: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:29:16: Too few paired peaks (1) 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 21:29:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) INFO @ Sat, 15 Jan 2022 21:29:17: 4000000 INFO @ Sat, 15 Jan 2022 21:29:19: 8000000 rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:29:25: 5000000 INFO @ Sat, 15 Jan 2022 21:29:27: 9000000 INFO @ Sat, 15 Jan 2022 21:29:33: 6000000 INFO @ Sat, 15 Jan 2022 21:29:34: 10000000 INFO @ Sat, 15 Jan 2022 21:29:40: 7000000 INFO @ Sat, 15 Jan 2022 21:29:42: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:29:47: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:29:47: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:29:47: #1 total tags in treatment: 5607759 INFO @ Sat, 15 Jan 2022 21:29:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:29:47: #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 21:29:47: #1 tags after filtering in treatment: 3636270 INFO @ Sat, 15 Jan 2022 21:29:47: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:29:47: #1 finished! INFO @ Sat, 15 Jan 2022 21:29:47: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:29:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:29:47: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:29:47: Too few paired peaks (1) 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 21:29:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.10_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/SRX9399130/SRX9399130.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:29:48: 8000000 INFO @ Sat, 15 Jan 2022 21:29:56: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:30:03: 10000000 INFO @ Sat, 15 Jan 2022 21:30:11: 11000000 INFO @ Sat, 15 Jan 2022 21:30:16: #1 tag size is determined as 35 bps INFO @ Sat, 15 Jan 2022 21:30:16: #1 tag size = 35 INFO @ Sat, 15 Jan 2022 21:30:16: #1 total tags in treatment: 5607759 INFO @ Sat, 15 Jan 2022 21:30:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:30:16: #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 21:30:16: #1 tags after filtering in treatment: 3636270 INFO @ Sat, 15 Jan 2022 21:30:16: #1 Redundant rate of treatment: 0.35 INFO @ Sat, 15 Jan 2022 21:30:16: #1 finished! INFO @ Sat, 15 Jan 2022 21:30:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:30:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:30:16: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:30:16: Too few paired peaks (1) 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 21:30:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.20_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/SRX9399130/SRX9399130.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399130/SRX9399130.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling