Job ID = 14521172 SRX = SRX10828623 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8287263 spots for SRR14480448/SRR14480448.sra Written 8287263 spots for SRR14480448/SRR14480448.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: 00:05:55 8287263 reads; of these: 8287263 (100.00%) were paired; of these: 1585230 (19.13%) aligned concordantly 0 times 5690676 (68.67%) aligned concordantly exactly 1 time 1011357 (12.20%) aligned concordantly >1 times ---- 1585230 pairs aligned concordantly 0 times; of these: 82168 (5.18%) aligned discordantly 1 time ---- 1503062 pairs aligned 0 times concordantly or discordantly; of these: 3006124 mates make up the pairs; of these: 2776210 (92.35%) aligned 0 times 170524 (5.67%) aligned exactly 1 time 59390 (1.98%) aligned >1 times 83.25% overall alignment rate Time searching: 00:05:55 Overall time: 00:05:55 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] 1781490 / 6769275 = 0.2632 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 20:43:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.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 20:43:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:40: 1000000 INFO @ Sat, 15 Jan 2022 20:43:46: 2000000 INFO @ Sat, 15 Jan 2022 20:43:52: 3000000 INFO @ Sat, 15 Jan 2022 20:43:57: 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 20:44:03: 5000000 INFO @ Sat, 15 Jan 2022 20:44:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.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 20:44:04: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:44:04: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:09: 6000000 INFO @ Sat, 15 Jan 2022 20:44:10: 1000000 INFO @ Sat, 15 Jan 2022 20:44:14: 7000000 INFO @ Sat, 15 Jan 2022 20:44:17: 2000000 INFO @ Sat, 15 Jan 2022 20:44:20: 8000000 INFO @ Sat, 15 Jan 2022 20:44:23: 3000000 INFO @ Sat, 15 Jan 2022 20:44:26: 9000000 INFO @ Sat, 15 Jan 2022 20:44:30: 4000000 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 20:44:32: 10000000 INFO @ Sat, 15 Jan 2022 20:44:33: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:44:33: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:44:33: #1 total tags in treatment: 4932323 INFO @ Sat, 15 Jan 2022 20:44:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:44:33: #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 20:44:33: #1 tags after filtering in treatment: 3349054 INFO @ Sat, 15 Jan 2022 20:44:33: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 20:44:33: #1 finished! INFO @ Sat, 15 Jan 2022 20:44:33: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:44:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:44:34: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 20:44:34: Too few paired peaks (9) 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 20:44:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.05_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/SRX10828623/SRX10828623.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:44:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.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 20:44:34: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:44:34: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:37: 5000000 INFO @ Sat, 15 Jan 2022 20:44:41: 1000000 INFO @ Sat, 15 Jan 2022 20:44:44: 6000000 INFO @ Sat, 15 Jan 2022 20:44:48: 2000000 INFO @ Sat, 15 Jan 2022 20:44:51: 7000000 INFO @ Sat, 15 Jan 2022 20:44:55: 3000000 INFO @ Sat, 15 Jan 2022 20:44:58: 8000000 INFO @ Sat, 15 Jan 2022 20:45:02: 4000000 INFO @ Sat, 15 Jan 2022 20:45:05: 9000000 INFO @ Sat, 15 Jan 2022 20:45:09: 5000000 INFO @ Sat, 15 Jan 2022 20:45:12: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:45:14: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:45:14: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:45:14: #1 total tags in treatment: 4932323 INFO @ Sat, 15 Jan 2022 20:45:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:45:14: #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 20:45:14: #1 tags after filtering in treatment: 3349054 INFO @ Sat, 15 Jan 2022 20:45:14: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 20:45:14: #1 finished! INFO @ Sat, 15 Jan 2022 20:45:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:45:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:45:14: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 20:45:14: Too few paired peaks (9) 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 20:45:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.10_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/SRX10828623/SRX10828623.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:45:16: 6000000 INFO @ Sat, 15 Jan 2022 20:45:23: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:45:29: 8000000 INFO @ Sat, 15 Jan 2022 20:45:35: 9000000 INFO @ Sat, 15 Jan 2022 20:45:42: 10000000 INFO @ Sat, 15 Jan 2022 20:45:43: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 20:45:43: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 20:45:43: #1 total tags in treatment: 4932323 INFO @ Sat, 15 Jan 2022 20:45:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:45:43: #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 20:45:43: #1 tags after filtering in treatment: 3349054 INFO @ Sat, 15 Jan 2022 20:45:43: #1 Redundant rate of treatment: 0.32 INFO @ Sat, 15 Jan 2022 20:45:43: #1 finished! INFO @ Sat, 15 Jan 2022 20:45:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:45:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:45:43: #2 number of paired peaks: 9 WARNING @ Sat, 15 Jan 2022 20:45:43: Too few paired peaks (9) 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 20:45:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.20_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/SRX10828623/SRX10828623.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828623/SRX10828623.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling