Job ID = 8069672 SRX = SRX7917417 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-08-08T03:44:42 prefetch.2.10.7: 1) Downloading 'SRR11312964'... 2020-08-08T03:44:42 prefetch.2.10.7: Downloading via HTTPS... 2020-08-08T03:45:14 prefetch.2.10.7: HTTPS download succeed 2020-08-08T03:45:14 prefetch.2.10.7: 'SRR11312964' is valid 2020-08-08T03:45:14 prefetch.2.10.7: 1) 'SRR11312964' was downloaded successfully Read 2930332 spots for SRR11312964/SRR11312964.sra Written 2930332 spots for SRR11312964/SRR11312964.sra fastq に変換しました。 bowtie でマッピング中... Your job 8070454 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:44 2930332 reads; of these: 2930332 (100.00%) were paired; of these: 647009 (22.08%) aligned concordantly 0 times 1667621 (56.91%) aligned concordantly exactly 1 time 615702 (21.01%) aligned concordantly >1 times ---- 647009 pairs aligned concordantly 0 times; of these: 289047 (44.67%) aligned discordantly 1 time ---- 357962 pairs aligned 0 times concordantly or discordantly; of these: 715924 mates make up the pairs; of these: 272779 (38.10%) aligned 0 times 172832 (24.14%) aligned exactly 1 time 270313 (37.76%) aligned >1 times 95.35% overall alignment rate Time searching: 00:05:45 Overall time: 00:05:45 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 735923 / 2562203 = 0.2872 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 @ Sat, 08 Aug 2020 12:52:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 08 Aug 2020 12:52:56: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:52:56: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:53:02: 1000000 INFO @ Sat, 08 Aug 2020 12:53:08: 2000000 INFO @ Sat, 08 Aug 2020 12:53:14: 3000000 INFO @ Sat, 08 Aug 2020 12:53:19: 4000000 INFO @ Sat, 08 Aug 2020 12:53:20: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:53:20: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:53:20: #1 total tags in treatment: 1577635 INFO @ Sat, 08 Aug 2020 12:53:20: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:53:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:53:20: #1 tags after filtering in treatment: 1227081 INFO @ Sat, 08 Aug 2020 12:53:20: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 08 Aug 2020 12:53:20: #1 finished! INFO @ Sat, 08 Aug 2020 12:53:20: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:53:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:53:20: #2 number of paired peaks: 3 WARNING @ Sat, 08 Aug 2020 12:53:20: Too few paired peaks (3) 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, 08 Aug 2020 12:53:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.05_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/dm3/SRX7917417/SRX7917417.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Sat, 08 Aug 2020 12:53:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 08 Aug 2020 12:53:26: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:53:26: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:53:32: 1000000 INFO @ Sat, 08 Aug 2020 12:53:38: 2000000 INFO @ Sat, 08 Aug 2020 12:53:44: 3000000 INFO @ Sat, 08 Aug 2020 12:53:49: 4000000 INFO @ Sat, 08 Aug 2020 12:53:50: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:53:50: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:53:50: #1 total tags in treatment: 1577635 INFO @ Sat, 08 Aug 2020 12:53:50: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:53:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:53:50: #1 tags after filtering in treatment: 1227081 INFO @ Sat, 08 Aug 2020 12:53:50: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 08 Aug 2020 12:53:50: #1 finished! INFO @ Sat, 08 Aug 2020 12:53:50: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:53:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:53:50: #2 number of paired peaks: 3 WARNING @ Sat, 08 Aug 2020 12:53:50: Too few paired peaks (3) 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, 08 Aug 2020 12:53:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.10_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/dm3/SRX7917417/SRX7917417.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Sat, 08 Aug 2020 12:53:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 08 Aug 2020 12:53:56: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:53:56: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:54:02: 1000000 INFO @ Sat, 08 Aug 2020 12:54:08: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 08 Aug 2020 12:54:13: 3000000 BigWig に変換しました。 INFO @ Sat, 08 Aug 2020 12:54:20: 4000000 INFO @ Sat, 08 Aug 2020 12:54:20: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:54:20: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:54:20: #1 total tags in treatment: 1577635 INFO @ Sat, 08 Aug 2020 12:54:20: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:54:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:54:20: #1 tags after filtering in treatment: 1227081 INFO @ Sat, 08 Aug 2020 12:54:20: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 08 Aug 2020 12:54:20: #1 finished! INFO @ Sat, 08 Aug 2020 12:54:20: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:54:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:54:20: #2 number of paired peaks: 3 WARNING @ Sat, 08 Aug 2020 12:54:20: Too few paired peaks (3) 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, 08 Aug 2020 12:54:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.20_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/dm3/SRX7917417/SRX7917417.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917417/SRX7917417.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling