Job ID = 14521854 SRX = SRX9399095 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 5670108 spots for SRR12935376/SRR12935376.sra Written 5670108 spots for SRR12935376/SRR12935376.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: 00:03:38 5670108 reads; of these: 5670108 (100.00%) were paired; of these: 892193 (15.74%) aligned concordantly 0 times 3843168 (67.78%) aligned concordantly exactly 1 time 934747 (16.49%) aligned concordantly >1 times ---- 892193 pairs aligned concordantly 0 times; of these: 64185 (7.19%) aligned discordantly 1 time ---- 828008 pairs aligned 0 times concordantly or discordantly; of these: 1656016 mates make up the pairs; of these: 1557639 (94.06%) aligned 0 times 58187 (3.51%) aligned exactly 1 time 40190 (2.43%) aligned >1 times 86.26% overall alignment rate Time searching: 00:03:38 Overall time: 00:03:38 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_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] 1461764 / 4831660 = 0.3025 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 21:49:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.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 21:49:52: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:49:52: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:49:57: 1000000 INFO @ Sat, 15 Jan 2022 21:50:03: 2000000 INFO @ Sat, 15 Jan 2022 21:50:09: 3000000 INFO @ Sat, 15 Jan 2022 21:50:14: 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 21:50:20: 5000000 INFO @ Sat, 15 Jan 2022 21:50:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.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 21:50:21: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:21: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:50:26: 6000000 INFO @ Sat, 15 Jan 2022 21:50:27: 1000000 INFO @ Sat, 15 Jan 2022 21:50:31: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:50:31: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:50:31: #1 total tags in treatment: 3324724 INFO @ Sat, 15 Jan 2022 21:50:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:50:31: #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 21:50:31: #1 tags after filtering in treatment: 2355729 INFO @ Sat, 15 Jan 2022 21:50:31: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:50:31: #1 finished! INFO @ Sat, 15 Jan 2022 21:50:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:50:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:50:31: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:50:31: Too few paired peaks (27) 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 21:50:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.05_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/SRX9399095/SRX9399095.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:50:34: 2000000 INFO @ Sat, 15 Jan 2022 21:50:40: 3000000 INFO @ Sat, 15 Jan 2022 21:50:46: 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 21:50:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.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 21:50:51: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:51: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:50:53: 5000000 INFO @ Sat, 15 Jan 2022 21:50:58: 1000000 INFO @ Sat, 15 Jan 2022 21:50:58: 6000000 INFO @ Sat, 15 Jan 2022 21:51:04: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:51:04: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:51:04: #1 total tags in treatment: 3324724 INFO @ Sat, 15 Jan 2022 21:51:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:04: #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 21:51:04: #1 tags after filtering in treatment: 2355729 INFO @ Sat, 15 Jan 2022 21:51:04: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:51:04: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:04: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:04: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:51:04: Too few paired peaks (27) 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 21:51:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.10_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/SRX9399095/SRX9399095.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:51:05: 2000000 INFO @ Sat, 15 Jan 2022 21:51:12: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:51:19: 4000000 INFO @ Sat, 15 Jan 2022 21:51:25: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:51:32: 6000000 INFO @ Sat, 15 Jan 2022 21:51:38: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 21:51:38: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 21:51:38: #1 total tags in treatment: 3324724 INFO @ Sat, 15 Jan 2022 21:51:38: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:51:38: #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 21:51:38: #1 tags after filtering in treatment: 2355729 INFO @ Sat, 15 Jan 2022 21:51:38: #1 Redundant rate of treatment: 0.29 INFO @ Sat, 15 Jan 2022 21:51:38: #1 finished! INFO @ Sat, 15 Jan 2022 21:51:38: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:51:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:51:38: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 21:51:38: Too few paired peaks (27) 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 21:51:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.20_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/SRX9399095/SRX9399095.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399095/SRX9399095.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling