Job ID = 14521405 SRX = SRX10828577 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5943536 spots for SRR14480402/SRR14480402.sra Written 5943536 spots for SRR14480402/SRR14480402.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: 00:02:58 5943536 reads; of these: 5943536 (100.00%) were paired; of these: 801225 (13.48%) aligned concordantly 0 times 4649224 (78.22%) aligned concordantly exactly 1 time 493087 (8.30%) aligned concordantly >1 times ---- 801225 pairs aligned concordantly 0 times; of these: 213647 (26.67%) aligned discordantly 1 time ---- 587578 pairs aligned 0 times concordantly or discordantly; of these: 1175156 mates make up the pairs; of these: 941984 (80.16%) aligned 0 times 169364 (14.41%) aligned exactly 1 time 63808 (5.43%) aligned >1 times 92.08% overall alignment rate Time searching: 00:02:58 Overall time: 00:02:58 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] 604271 / 5232709 = 0.1155 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 21:02:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.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 21:02:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:02:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:02:22: 1000000 INFO @ Sat, 15 Jan 2022 21:02:28: 2000000 INFO @ Sat, 15 Jan 2022 21:02:33: 3000000 INFO @ Sat, 15 Jan 2022 21:02:39: 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 21:02:45: 5000000 INFO @ Sat, 15 Jan 2022 21:02:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.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 21:02:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:02:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:02:51: 6000000 INFO @ Sat, 15 Jan 2022 21:02:52: 1000000 INFO @ Sat, 15 Jan 2022 21:02:58: 2000000 INFO @ Sat, 15 Jan 2022 21:02:58: 7000000 INFO @ Sat, 15 Jan 2022 21:03:03: 3000000 INFO @ Sat, 15 Jan 2022 21:03:04: 8000000 INFO @ Sat, 15 Jan 2022 21:03:09: 4000000 INFO @ Sat, 15 Jan 2022 21:03:11: 9000000 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 21:03:15: 5000000 INFO @ Sat, 15 Jan 2022 21:03:15: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:03:15: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:03:15: #1 total tags in treatment: 4543867 INFO @ Sat, 15 Jan 2022 21:03:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:03:15: #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 21:03:15: #1 tags after filtering in treatment: 3017511 INFO @ Sat, 15 Jan 2022 21:03:15: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:03:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:03:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:03:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:03:16: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:03:16: 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 21:03:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:03:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.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 21:03:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:03:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:03:20: 6000000 INFO @ Sat, 15 Jan 2022 21:03:23: 1000000 INFO @ Sat, 15 Jan 2022 21:03:26: 7000000 INFO @ Sat, 15 Jan 2022 21:03:29: 2000000 INFO @ Sat, 15 Jan 2022 21:03:31: 8000000 INFO @ Sat, 15 Jan 2022 21:03:35: 3000000 INFO @ Sat, 15 Jan 2022 21:03:37: 9000000 INFO @ Sat, 15 Jan 2022 21:03:41: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:03:41: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:03:41: #1 total tags in treatment: 4543867 INFO @ Sat, 15 Jan 2022 21:03:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:03:41: #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 21:03:41: #1 tags after filtering in treatment: 3017511 INFO @ Sat, 15 Jan 2022 21:03:41: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:03:41: #1 finished! INFO @ Sat, 15 Jan 2022 21:03:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:03:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:03:41: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:03:41: 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 21:03:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.10_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/SRX10828577/SRX10828577.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:03:41: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:03:48: 5000000 INFO @ Sat, 15 Jan 2022 21:03:53: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:03:59: 7000000 INFO @ Sat, 15 Jan 2022 21:04:05: 8000000 INFO @ Sat, 15 Jan 2022 21:04:11: 9000000 INFO @ Sat, 15 Jan 2022 21:04:15: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:04:15: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:04:15: #1 total tags in treatment: 4543867 INFO @ Sat, 15 Jan 2022 21:04:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:04:15: #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 21:04:15: #1 tags after filtering in treatment: 3017511 INFO @ Sat, 15 Jan 2022 21:04:15: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:04:15: #1 finished! INFO @ Sat, 15 Jan 2022 21:04:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:04:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:04:16: #2 number of paired peaks: 1 WARNING @ Sat, 15 Jan 2022 21:04:16: 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 21:04:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.20_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/SRX10828577/SRX10828577.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828577/SRX10828577.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling