Job ID = 14519757 SRX = SRX8754218 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6852409 spots for SRR12246289/SRR12246289.sra Written 6852409 spots for SRR12246289/SRR12246289.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: 00:03:42 6852409 reads; of these: 6852409 (100.00%) were paired; of these: 427291 (6.24%) aligned concordantly 0 times 5991956 (87.44%) aligned concordantly exactly 1 time 433162 (6.32%) aligned concordantly >1 times ---- 427291 pairs aligned concordantly 0 times; of these: 122565 (28.68%) aligned discordantly 1 time ---- 304726 pairs aligned 0 times concordantly or discordantly; of these: 609452 mates make up the pairs; of these: 478062 (78.44%) aligned 0 times 105698 (17.34%) aligned exactly 1 time 25692 (4.22%) aligned >1 times 96.51% overall alignment rate Time searching: 00:03:42 Overall time: 00:03:42 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] 249288 / 6541109 = 0.0381 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 17:47:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.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 17:47:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:47:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:48:03: 1000000 INFO @ Sat, 15 Jan 2022 17:48:10: 2000000 INFO @ Sat, 15 Jan 2022 17:48:17: 3000000 INFO @ Sat, 15 Jan 2022 17:48:24: 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 17:48:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.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 17:48:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:48:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:48:32: 5000000 INFO @ Sat, 15 Jan 2022 17:48:33: 1000000 INFO @ Sat, 15 Jan 2022 17:48:40: 6000000 INFO @ Sat, 15 Jan 2022 17:48:41: 2000000 INFO @ Sat, 15 Jan 2022 17:48:48: 3000000 INFO @ Sat, 15 Jan 2022 17:48:48: 7000000 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 17:48:55: 4000000 INFO @ Sat, 15 Jan 2022 17:48:56: 8000000 INFO @ Sat, 15 Jan 2022 17:48:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.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 17:48:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:48:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:49:02: 5000000 INFO @ Sat, 15 Jan 2022 17:49:04: 1000000 INFO @ Sat, 15 Jan 2022 17:49:04: 9000000 INFO @ Sat, 15 Jan 2022 17:49:09: 6000000 INFO @ Sat, 15 Jan 2022 17:49:11: 2000000 INFO @ Sat, 15 Jan 2022 17:49:12: 10000000 INFO @ Sat, 15 Jan 2022 17:49:17: 7000000 INFO @ Sat, 15 Jan 2022 17:49:18: 3000000 INFO @ Sat, 15 Jan 2022 17:49:21: 11000000 INFO @ Sat, 15 Jan 2022 17:49:24: 8000000 INFO @ Sat, 15 Jan 2022 17:49:26: 4000000 INFO @ Sat, 15 Jan 2022 17:49:29: 12000000 INFO @ Sat, 15 Jan 2022 17:49:31: 9000000 INFO @ Sat, 15 Jan 2022 17:49:33: 5000000 INFO @ Sat, 15 Jan 2022 17:49:35: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:49:35: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:49:35: #1 total tags in treatment: 6176902 INFO @ Sat, 15 Jan 2022 17:49:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:49:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:49:35: #1 tags after filtering in treatment: 5129341 INFO @ Sat, 15 Jan 2022 17:49:35: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 17:49:35: #1 finished! INFO @ Sat, 15 Jan 2022 17:49:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:49:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:49:35: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:49:35: 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 17:49:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:49:38: 10000000 INFO @ Sat, 15 Jan 2022 17:49:40: 6000000 INFO @ Sat, 15 Jan 2022 17:49:45: 11000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:49:46: 7000000 INFO @ Sat, 15 Jan 2022 17:49:51: 12000000 INFO @ Sat, 15 Jan 2022 17:49:53: 8000000 INFO @ Sat, 15 Jan 2022 17:49:56: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:49:56: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:49:56: #1 total tags in treatment: 6176902 INFO @ Sat, 15 Jan 2022 17:49:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:49:56: #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 17:49:56: #1 tags after filtering in treatment: 5129341 INFO @ Sat, 15 Jan 2022 17:49:56: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 17:49:56: #1 finished! INFO @ Sat, 15 Jan 2022 17:49:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:49:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:49:56: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:49:56: 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 17:49:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.10_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/SRX8754218/SRX8754218.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:49:59: 9000000 INFO @ Sat, 15 Jan 2022 17:50:04: 10000000 INFO @ Sat, 15 Jan 2022 17:50:10: 11000000 INFO @ Sat, 15 Jan 2022 17:50:15: 12000000 INFO @ Sat, 15 Jan 2022 17:50:19: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:50:19: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:50:19: #1 total tags in treatment: 6176902 INFO @ Sat, 15 Jan 2022 17:50:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:50:19: #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 17:50:19: #1 tags after filtering in treatment: 5129341 INFO @ Sat, 15 Jan 2022 17:50:19: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 17:50:19: #1 finished! INFO @ Sat, 15 Jan 2022 17:50:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:50:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:50:19: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 17:50:19: 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 17:50:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.20_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/SRX8754218/SRX8754218.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754218/SRX8754218.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling