Job ID = 7114043 SRX = SRX8462187 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T05:48:48 prefetch.2.10.7: 1) Downloading 'SRR11915646'... 2020-07-22T05:48:48 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T05:50:07 prefetch.2.10.7: HTTPS download succeed 2020-07-22T05:50:07 prefetch.2.10.7: 1) 'SRR11915646' was downloaded successfully 2020-07-22T05:50:07 prefetch.2.10.7: 'SRR11915646' has 0 unresolved dependencies Read 8942429 spots for SRR11915646/SRR11915646.sra Written 8942429 spots for SRR11915646/SRR11915646.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: 00:08:07 8942429 reads; of these: 8942429 (100.00%) were paired; of these: 930352 (10.40%) aligned concordantly 0 times 6685156 (74.76%) aligned concordantly exactly 1 time 1326921 (14.84%) aligned concordantly >1 times ---- 930352 pairs aligned concordantly 0 times; of these: 54127 (5.82%) aligned discordantly 1 time ---- 876225 pairs aligned 0 times concordantly or discordantly; of these: 1752450 mates make up the pairs; of these: 1563823 (89.24%) aligned 0 times 137247 (7.83%) aligned exactly 1 time 51380 (2.93%) aligned >1 times 91.26% overall alignment rate Time searching: 00:08:07 Overall time: 00:08:07 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] 3251034 / 8058882 = 0.4034 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 15:04:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.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 @ Wed, 22 Jul 2020 15:04:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:04:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:04:26: 1000000 INFO @ Wed, 22 Jul 2020 15:04:33: 2000000 INFO @ Wed, 22 Jul 2020 15:04:41: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 15:04:48: 4000000 INFO @ Wed, 22 Jul 2020 15:04:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.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 @ Wed, 22 Jul 2020 15:04:48: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:04:48: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:04:56: 5000000 INFO @ Wed, 22 Jul 2020 15:04:57: 1000000 INFO @ Wed, 22 Jul 2020 15:05:04: 6000000 INFO @ Wed, 22 Jul 2020 15:05:08: 2000000 INFO @ Wed, 22 Jul 2020 15:05:12: 7000000 INFO @ Wed, 22 Jul 2020 15:05:16: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Jul 2020 15:05:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.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 @ Wed, 22 Jul 2020 15:05:18: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:05:18: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:05:20: 8000000 INFO @ Wed, 22 Jul 2020 15:05:24: 4000000 INFO @ Wed, 22 Jul 2020 15:05:26: 1000000 INFO @ Wed, 22 Jul 2020 15:05:28: 9000000 INFO @ Wed, 22 Jul 2020 15:05:32: 5000000 INFO @ Wed, 22 Jul 2020 15:05:35: 2000000 INFO @ Wed, 22 Jul 2020 15:05:35: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:05:35: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:05:35: #1 total tags in treatment: 4768411 INFO @ Wed, 22 Jul 2020 15:05:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:05:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:05:35: #1 tags after filtering in treatment: 3661839 INFO @ Wed, 22 Jul 2020 15:05:35: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 15:05:35: #1 finished! INFO @ Wed, 22 Jul 2020 15:05:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:05:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:05:35: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 15:05:35: Too few paired peaks (28) 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 @ Wed, 22 Jul 2020 15:05:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.05_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/SRX8462187/SRX8462187.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:05:41: 6000000 INFO @ Wed, 22 Jul 2020 15:05:43: 3000000 INFO @ Wed, 22 Jul 2020 15:05:48: 7000000 INFO @ Wed, 22 Jul 2020 15:05:51: 4000000 INFO @ Wed, 22 Jul 2020 15:05:56: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:05:59: 5000000 INFO @ Wed, 22 Jul 2020 15:06:04: 9000000 INFO @ Wed, 22 Jul 2020 15:06:06: 6000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:06:11: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:06:11: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:06:11: #1 total tags in treatment: 4768411 INFO @ Wed, 22 Jul 2020 15:06:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:06:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:06:11: #1 tags after filtering in treatment: 3661839 INFO @ Wed, 22 Jul 2020 15:06:11: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 15:06:11: #1 finished! INFO @ Wed, 22 Jul 2020 15:06:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:06:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:06:11: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 15:06:11: Too few paired peaks (28) 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 @ Wed, 22 Jul 2020 15:06:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.10_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/SRX8462187/SRX8462187.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:06:14: 7000000 INFO @ Wed, 22 Jul 2020 15:06:22: 8000000 INFO @ Wed, 22 Jul 2020 15:06:29: 9000000 INFO @ Wed, 22 Jul 2020 15:06:35: #1 tag size is determined as 75 bps INFO @ Wed, 22 Jul 2020 15:06:35: #1 tag size = 75 INFO @ Wed, 22 Jul 2020 15:06:35: #1 total tags in treatment: 4768411 INFO @ Wed, 22 Jul 2020 15:06:35: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:06:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:06:35: #1 tags after filtering in treatment: 3661839 INFO @ Wed, 22 Jul 2020 15:06:35: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 22 Jul 2020 15:06:35: #1 finished! INFO @ Wed, 22 Jul 2020 15:06:35: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:06:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:06:35: #2 number of paired peaks: 28 WARNING @ Wed, 22 Jul 2020 15:06:35: Too few paired peaks (28) 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 @ Wed, 22 Jul 2020 15:06:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.20_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/SRX8462187/SRX8462187.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8462187/SRX8462187.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling