Job ID = 14521589 SRX = SRX9399101 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7302458 spots for SRR12935382/SRR12935382.sra Written 7302458 spots for SRR12935382/SRR12935382.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: 00:03:13 7302458 reads; of these: 7302458 (100.00%) were paired; of these: 1015968 (13.91%) aligned concordantly 0 times 5048769 (69.14%) aligned concordantly exactly 1 time 1237721 (16.95%) aligned concordantly >1 times ---- 1015968 pairs aligned concordantly 0 times; of these: 213181 (20.98%) aligned discordantly 1 time ---- 802787 pairs aligned 0 times concordantly or discordantly; of these: 1605574 mates make up the pairs; of these: 1148484 (71.53%) aligned 0 times 299975 (18.68%) aligned exactly 1 time 157115 (9.79%) aligned >1 times 92.14% overall alignment rate Time searching: 00:03:13 Overall time: 00:03:13 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] 1529931 / 6474816 = 0.2363 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 21:18:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.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 21:18:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:18:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:19:02: 1000000 INFO @ Sat, 15 Jan 2022 21:19:06: 2000000 INFO @ Sat, 15 Jan 2022 21:19:10: 3000000 INFO @ Sat, 15 Jan 2022 21:19:14: 4000000 INFO @ Sat, 15 Jan 2022 21:19:18: 5000000 INFO @ Sat, 15 Jan 2022 21:19:22: 6000000 INFO @ Sat, 15 Jan 2022 21:19:26: 7000000 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 21:19:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.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 21:19:28: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:19:28: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:19:30: 8000000 INFO @ Sat, 15 Jan 2022 21:19:33: 1000000 INFO @ Sat, 15 Jan 2022 21:19:34: 9000000 INFO @ Sat, 15 Jan 2022 21:19:38: 2000000 INFO @ Sat, 15 Jan 2022 21:19:38: 10000000 INFO @ Sat, 15 Jan 2022 21:19:40: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:19:40: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:19:40: #1 total tags in treatment: 4776595 INFO @ Sat, 15 Jan 2022 21:19:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:19:40: #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 21:19:40: #1 tags after filtering in treatment: 3159029 INFO @ Sat, 15 Jan 2022 21:19:40: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:19:40: #1 finished! INFO @ Sat, 15 Jan 2022 21:19:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:19:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:19:40: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:19:40: 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 21:19:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.05_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/SRX9399101/SRX9399101.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:19:43: 3000000 INFO @ Sat, 15 Jan 2022 21:19:47: 4000000 INFO @ Sat, 15 Jan 2022 21:19:52: 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 21:19:57: 6000000 INFO @ Sat, 15 Jan 2022 21:19:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.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 21:19:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:19:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:20:01: 7000000 INFO @ Sat, 15 Jan 2022 21:20:02: 1000000 INFO @ Sat, 15 Jan 2022 21:20:06: 8000000 INFO @ Sat, 15 Jan 2022 21:20:06: 2000000 INFO @ Sat, 15 Jan 2022 21:20:10: 3000000 INFO @ Sat, 15 Jan 2022 21:20:11: 9000000 INFO @ Sat, 15 Jan 2022 21:20:14: 4000000 INFO @ Sat, 15 Jan 2022 21:20:16: 10000000 INFO @ Sat, 15 Jan 2022 21:20:17: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:20:17: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:20:17: #1 total tags in treatment: 4776595 INFO @ Sat, 15 Jan 2022 21:20:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:20:17: #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 21:20:18: #1 tags after filtering in treatment: 3159029 INFO @ Sat, 15 Jan 2022 21:20:18: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:20:18: #1 finished! INFO @ Sat, 15 Jan 2022 21:20:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:20:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:20:18: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:20:18: 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 21:20:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.10_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/SRX9399101/SRX9399101.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:20:18: 5000000 INFO @ Sat, 15 Jan 2022 21:20:22: 6000000 INFO @ Sat, 15 Jan 2022 21:20:26: 7000000 INFO @ Sat, 15 Jan 2022 21:20:30: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:20:34: 9000000 INFO @ Sat, 15 Jan 2022 21:20:38: 10000000 INFO @ Sat, 15 Jan 2022 21:20:39: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:20:39: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:20:39: #1 total tags in treatment: 4776595 INFO @ Sat, 15 Jan 2022 21:20:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:20:39: #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 21:20:39: #1 tags after filtering in treatment: 3159029 INFO @ Sat, 15 Jan 2022 21:20:39: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:20:39: #1 finished! INFO @ Sat, 15 Jan 2022 21:20:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:20:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:20:40: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:20:40: 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 21:20:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.20_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/SRX9399101/SRX9399101.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399101/SRX9399101.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。