Job ID = 14521063 SRX = SRX10828600 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5550482 spots for SRR14480425/SRR14480425.sra Written 5550482 spots for SRR14480425/SRR14480425.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: 00:03:07 5550482 reads; of these: 5550482 (100.00%) were paired; of these: 766628 (13.81%) aligned concordantly 0 times 4111323 (74.07%) aligned concordantly exactly 1 time 672531 (12.12%) aligned concordantly >1 times ---- 766628 pairs aligned concordantly 0 times; of these: 88688 (11.57%) aligned discordantly 1 time ---- 677940 pairs aligned 0 times concordantly or discordantly; of these: 1355880 mates make up the pairs; of these: 1171673 (86.41%) aligned 0 times 136412 (10.06%) aligned exactly 1 time 47795 (3.53%) aligned >1 times 89.45% overall alignment rate Time searching: 00:03:07 Overall time: 00:03:07 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] 683370 / 4840803 = 0.1412 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 20:27:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.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 20:27:58: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:27:58: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:28:03: 1000000 INFO @ Sat, 15 Jan 2022 20:28:08: 2000000 INFO @ Sat, 15 Jan 2022 20:28:12: 3000000 INFO @ Sat, 15 Jan 2022 20:28:17: 4000000 INFO @ Sat, 15 Jan 2022 20:28:22: 5000000 INFO @ Sat, 15 Jan 2022 20:28:27: 6000000 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 20:28:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.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 20:28:28: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:28:28: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:28:32: 7000000 INFO @ Sat, 15 Jan 2022 20:28:34: 1000000 INFO @ Sat, 15 Jan 2022 20:28:37: 8000000 INFO @ Sat, 15 Jan 2022 20:28:39: 2000000 INFO @ Sat, 15 Jan 2022 20:28:40: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:28:40: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:28:40: #1 total tags in treatment: 4104073 INFO @ Sat, 15 Jan 2022 20:28:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:28:40: #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 20:28:40: #1 tags after filtering in treatment: 2838115 INFO @ Sat, 15 Jan 2022 20:28:40: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:28:40: #1 finished! INFO @ Sat, 15 Jan 2022 20:28:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:28:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:28:40: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 20:28:40: Too few paired peaks (10) 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 20:28:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.05_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/SRX10828600/SRX10828600.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:28:44: 3000000 INFO @ Sat, 15 Jan 2022 20:28:49: 4000000 INFO @ Sat, 15 Jan 2022 20:28:53: 5000000 BedGraph に変換中... INFO @ Sat, 15 Jan 2022 20:28:58: 6000000 INFO @ Sat, 15 Jan 2022 20:29:02: 7000000 INFO @ Sat, 15 Jan 2022 20:29:07: 8000000 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 20:29:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.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 20:29:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:29:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:29:10: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:29:10: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:29:10: #1 total tags in treatment: 4104073 INFO @ Sat, 15 Jan 2022 20:29:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:29:10: #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 20:29:10: #1 tags after filtering in treatment: 2838115 INFO @ Sat, 15 Jan 2022 20:29:10: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:29:10: #1 finished! INFO @ Sat, 15 Jan 2022 20:29:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:29:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:29:10: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 20:29:10: Too few paired peaks (10) 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 20:29:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.10_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/SRX10828600/SRX10828600.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:29:14: 1000000 INFO @ Sat, 15 Jan 2022 20:29:18: 2000000 INFO @ Sat, 15 Jan 2022 20:29:23: 3000000 INFO @ Sat, 15 Jan 2022 20:29:28: 4000000 INFO @ Sat, 15 Jan 2022 20:29:32: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:29:37: 6000000 INFO @ Sat, 15 Jan 2022 20:29:42: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:29:46: 8000000 INFO @ Sat, 15 Jan 2022 20:29:49: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:29:49: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:29:49: #1 total tags in treatment: 4104073 INFO @ Sat, 15 Jan 2022 20:29:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:29:49: #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 20:29:49: #1 tags after filtering in treatment: 2838115 INFO @ Sat, 15 Jan 2022 20:29:49: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 20:29:49: #1 finished! INFO @ Sat, 15 Jan 2022 20:29:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:29:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:29:49: #2 number of paired peaks: 10 WARNING @ Sat, 15 Jan 2022 20:29:49: Too few paired peaks (10) 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 20:29:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828600/SRX10828600.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling