Job ID = 14521871 SRX = ERX4439562 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3831476 spots for ERR4501491/ERR4501491.sra Written 3831476 spots for ERR4501491/ERR4501491.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: 00:04:23 3831476 reads; of these: 3831476 (100.00%) were paired; of these: 1201963 (31.37%) aligned concordantly 0 times 2265202 (59.12%) aligned concordantly exactly 1 time 364311 (9.51%) aligned concordantly >1 times ---- 1201963 pairs aligned concordantly 0 times; of these: 551212 (45.86%) aligned discordantly 1 time ---- 650751 pairs aligned 0 times concordantly or discordantly; of these: 1301502 mates make up the pairs; of these: 1046284 (80.39%) aligned 0 times 74041 (5.69%) aligned exactly 1 time 181177 (13.92%) aligned >1 times 86.35% overall alignment rate Time searching: 00:04:23 Overall time: 00:04:23 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] 47062 / 3144803 = 0.0150 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 21:56:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.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 21:56:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:56:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:56:13: 1000000 INFO @ Sat, 15 Jan 2022 21:56:19: 2000000 INFO @ Sat, 15 Jan 2022 21:56:26: 3000000 INFO @ Sat, 15 Jan 2022 21:56:32: 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 21:56:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.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 21:56:36: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:56:36: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:56:39: 5000000 INFO @ Sat, 15 Jan 2022 21:56:43: 1000000 INFO @ Sat, 15 Jan 2022 21:56:46: 6000000 INFO @ Sat, 15 Jan 2022 21:56:49: 2000000 INFO @ Sat, 15 Jan 2022 21:56:49: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:56:49: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:56:49: #1 total tags in treatment: 2592340 INFO @ Sat, 15 Jan 2022 21:56:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:56:49: #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 21:56:49: #1 tags after filtering in treatment: 2269926 INFO @ Sat, 15 Jan 2022 21:56:49: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 21:56:49: #1 finished! INFO @ Sat, 15 Jan 2022 21:56:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:56:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:56:49: #2 number of paired peaks: 94 WARNING @ Sat, 15 Jan 2022 21:56:49: Too few paired peaks (94) 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 21:56:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.05_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/ERX4439562/ERX4439562.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:56:56: 3000000 INFO @ Sat, 15 Jan 2022 21:57:03: 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 21:57:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.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 21:57:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:57:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:57:09: 5000000 INFO @ Sat, 15 Jan 2022 21:57:13: 1000000 INFO @ Sat, 15 Jan 2022 21:57:16: 6000000 INFO @ Sat, 15 Jan 2022 21:57:19: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:57:19: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:57:19: #1 total tags in treatment: 2592340 INFO @ Sat, 15 Jan 2022 21:57:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:57:19: #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 21:57:19: #1 tags after filtering in treatment: 2269926 INFO @ Sat, 15 Jan 2022 21:57:19: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 21:57:19: #1 finished! INFO @ Sat, 15 Jan 2022 21:57:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:57:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:57:19: #2 number of paired peaks: 94 WARNING @ Sat, 15 Jan 2022 21:57:19: Too few paired peaks (94) 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 21:57:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.10_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/ERX4439562/ERX4439562.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:57:20: 2000000 INFO @ Sat, 15 Jan 2022 21:57:26: 3000000 INFO @ Sat, 15 Jan 2022 21:57:33: 4000000 INFO @ Sat, 15 Jan 2022 21:57:39: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:57:46: 6000000 INFO @ Sat, 15 Jan 2022 21:57:49: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:57:49: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:57:49: #1 total tags in treatment: 2592340 INFO @ Sat, 15 Jan 2022 21:57:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:57:49: #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 21:57:49: #1 tags after filtering in treatment: 2269926 INFO @ Sat, 15 Jan 2022 21:57:49: #1 Redundant rate of treatment: 0.12 INFO @ Sat, 15 Jan 2022 21:57:49: #1 finished! INFO @ Sat, 15 Jan 2022 21:57:49: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:57:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:57:49: #2 number of paired peaks: 94 WARNING @ Sat, 15 Jan 2022 21:57:49: Too few paired peaks (94) 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 21:57:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.20_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/ERX4439562/ERX4439562.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439562/ERX4439562.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。