Job ID = 14519778 SRX = SRX9369638 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 2413557 spots for SRR12904769/SRR12904769.sra Written 2413557 spots for SRR12904769/SRR12904769.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: 00:01:16 2413557 reads; of these: 2413557 (100.00%) were paired; of these: 540756 (22.40%) aligned concordantly 0 times 1601296 (66.35%) aligned concordantly exactly 1 time 271505 (11.25%) aligned concordantly >1 times ---- 540756 pairs aligned concordantly 0 times; of these: 57898 (10.71%) aligned discordantly 1 time ---- 482858 pairs aligned 0 times concordantly or discordantly; of these: 965716 mates make up the pairs; of these: 929837 (96.28%) aligned 0 times 12662 (1.31%) aligned exactly 1 time 23217 (2.40%) aligned >1 times 80.74% overall alignment rate Time searching: 00:01:16 Overall time: 00:01:16 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] 243329 / 1920522 = 0.1267 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 17:46:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.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 17:46:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:46:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:46:22: 1000000 INFO @ Sat, 15 Jan 2022 17:46:26: 2000000 INFO @ Sat, 15 Jan 2022 17:46:30: 3000000 INFO @ Sat, 15 Jan 2022 17:46:32: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:46:32: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:46:32: #1 total tags in treatment: 1635017 INFO @ Sat, 15 Jan 2022 17:46:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:46:32: #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 17:46:32: #1 tags after filtering in treatment: 1360095 INFO @ Sat, 15 Jan 2022 17:46:32: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 17:46:32: #1 finished! INFO @ Sat, 15 Jan 2022 17:46:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:46:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:46:32: #2 number of paired peaks: 35 WARNING @ Sat, 15 Jan 2022 17:46:32: Too few paired peaks (35) 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 17:46:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.05_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/SRX9369638/SRX9369638.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 17:46:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.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 17:46:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:46:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:46:52: 1000000 INFO @ Sat, 15 Jan 2022 17:46:56: 2000000 INFO @ Sat, 15 Jan 2022 17:47:00: 3000000 INFO @ Sat, 15 Jan 2022 17:47:02: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:47:02: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:47:02: #1 total tags in treatment: 1635017 INFO @ Sat, 15 Jan 2022 17:47:02: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:47:02: #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 17:47:02: #1 tags after filtering in treatment: 1360095 INFO @ Sat, 15 Jan 2022 17:47:02: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 17:47:02: #1 finished! INFO @ Sat, 15 Jan 2022 17:47:02: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:47:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:47:02: #2 number of paired peaks: 35 WARNING @ Sat, 15 Jan 2022 17:47:02: Too few paired peaks (35) 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 17:47:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.10_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/SRX9369638/SRX9369638.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 17:47:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.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 17:47:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:47:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:47:22: 1000000 INFO @ Sat, 15 Jan 2022 17:47:27: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:47:33: 3000000 INFO @ Sat, 15 Jan 2022 17:47:35: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:47:35: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:47:35: #1 total tags in treatment: 1635017 INFO @ Sat, 15 Jan 2022 17:47:35: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:47:35: #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 17:47:35: #1 tags after filtering in treatment: 1360095 INFO @ Sat, 15 Jan 2022 17:47:35: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 17:47:35: #1 finished! INFO @ Sat, 15 Jan 2022 17:47:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:47:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:47:35: #2 number of paired peaks: 35 WARNING @ Sat, 15 Jan 2022 17:47:35: Too few paired peaks (35) 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 17:47:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.20_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/SRX9369638/SRX9369638.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369638/SRX9369638.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。