Job ID = 14519751 SRX = SRX8754212 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3661743 spots for SRR12246283/SRR12246283.sra Written 3661743 spots for SRR12246283/SRR12246283.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: 00:01:37 3661743 reads; of these: 3661743 (100.00%) were paired; of these: 153198 (4.18%) aligned concordantly 0 times 3240456 (88.49%) aligned concordantly exactly 1 time 268089 (7.32%) aligned concordantly >1 times ---- 153198 pairs aligned concordantly 0 times; of these: 53865 (35.16%) aligned discordantly 1 time ---- 99333 pairs aligned 0 times concordantly or discordantly; of these: 198666 mates make up the pairs; of these: 169567 (85.35%) aligned 0 times 17960 (9.04%) aligned exactly 1 time 11139 (5.61%) aligned >1 times 97.68% overall alignment rate Time searching: 00:01:37 Overall time: 00:01:37 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] 35476 / 3559934 = 0.0100 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 17:41:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.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 17:41:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:41:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:41:30: 1000000 INFO @ Sat, 15 Jan 2022 17:41:35: 2000000 INFO @ Sat, 15 Jan 2022 17:41:40: 3000000 INFO @ Sat, 15 Jan 2022 17:41:44: 4000000 INFO @ Sat, 15 Jan 2022 17:41:49: 5000000 INFO @ Sat, 15 Jan 2022 17:41:54: 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 17:41:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.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 17:41:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:41:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:41:58: 7000000 INFO @ Sat, 15 Jan 2022 17:41:59: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 17:41:59: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 17:41:59: #1 total tags in treatment: 3473226 INFO @ Sat, 15 Jan 2022 17:41:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:41:59: #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 17:41:59: #1 tags after filtering in treatment: 3150259 INFO @ Sat, 15 Jan 2022 17:41:59: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 15 Jan 2022 17:41:59: #1 finished! INFO @ Sat, 15 Jan 2022 17:41:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:41:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:41:59: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:41:59: Too few paired peaks (0) 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 17:41:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.05_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/SRX8754212/SRX8754212.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:42:00: 1000000 INFO @ Sat, 15 Jan 2022 17:42:04: 2000000 INFO @ Sat, 15 Jan 2022 17:42:08: 3000000 INFO @ Sat, 15 Jan 2022 17:42:12: 4000000 INFO @ Sat, 15 Jan 2022 17:42:16: 5000000 INFO @ Sat, 15 Jan 2022 17:42:20: 6000000 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 17:42:24: 7000000 INFO @ Sat, 15 Jan 2022 17:42:25: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 17:42:25: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 17:42:25: #1 total tags in treatment: 3473226 INFO @ Sat, 15 Jan 2022 17:42:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:42:25: #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 17:42:25: #1 tags after filtering in treatment: 3150259 INFO @ Sat, 15 Jan 2022 17:42:25: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 15 Jan 2022 17:42:25: #1 finished! INFO @ Sat, 15 Jan 2022 17:42:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:42:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:42:25: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:42:25: Too few paired peaks (0) 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 17:42:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.10_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/SRX8754212/SRX8754212.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:42:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.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 17:42:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:42:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:42:30: 1000000 INFO @ Sat, 15 Jan 2022 17:42:35: 2000000 INFO @ Sat, 15 Jan 2022 17:42:40: 3000000 INFO @ Sat, 15 Jan 2022 17:42:45: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:42:50: 5000000 INFO @ Sat, 15 Jan 2022 17:42:54: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:42:59: 7000000 INFO @ Sat, 15 Jan 2022 17:43:00: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 17:43:00: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 17:43:00: #1 total tags in treatment: 3473226 INFO @ Sat, 15 Jan 2022 17:43:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:43:00: #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 17:43:00: #1 tags after filtering in treatment: 3150259 INFO @ Sat, 15 Jan 2022 17:43:00: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 15 Jan 2022 17:43:00: #1 finished! INFO @ Sat, 15 Jan 2022 17:43:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:43:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:43:00: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:43:00: Too few paired peaks (0) 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 17:43:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.20_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/SRX8754212/SRX8754212.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754212/SRX8754212.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling