Job ID = 8071254 SRX = SRX7917535 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-08-08T04:25:47 prefetch.2.10.7: 1) Downloading 'SRR11313116'... 2020-08-08T04:25:47 prefetch.2.10.7: Downloading via HTTPS... 2020-08-08T04:26:21 prefetch.2.10.7: HTTPS download succeed 2020-08-08T04:26:21 prefetch.2.10.7: 'SRR11313116' is valid 2020-08-08T04:26:21 prefetch.2.10.7: 1) 'SRR11313116' was downloaded successfully Read 3203164 spots for SRR11313116/SRR11313116.sra Written 3203164 spots for SRR11313116/SRR11313116.sra fastq に変換しました。 bowtie でマッピング中... Your job 8072490 ("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: 00:06:04 3203164 reads; of these: 3203164 (100.00%) were paired; of these: 686804 (21.44%) aligned concordantly 0 times 1926586 (60.15%) aligned concordantly exactly 1 time 589774 (18.41%) aligned concordantly >1 times ---- 686804 pairs aligned concordantly 0 times; of these: 214445 (31.22%) aligned discordantly 1 time ---- 472359 pairs aligned 0 times concordantly or discordantly; of these: 944718 mates make up the pairs; of these: 631822 (66.88%) aligned 0 times 146571 (15.51%) aligned exactly 1 time 166325 (17.61%) aligned >1 times 90.14% overall alignment rate Time searching: 00:06:05 Overall time: 00:06:05 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] 880841 / 2720179 = 0.3238 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 13:34:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.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 13:34:31: #1 read tag files... INFO @ Sat, 08 Aug 2020 13:34:31: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 13:34:37: 1000000 INFO @ Sat, 08 Aug 2020 13:34:42: 2000000 INFO @ Sat, 08 Aug 2020 13:34:48: 3000000 INFO @ Sat, 08 Aug 2020 13:34:54: 4000000 INFO @ Sat, 08 Aug 2020 13:34:54: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 13:34:54: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 13:34:54: #1 total tags in treatment: 1655779 INFO @ Sat, 08 Aug 2020 13:34:54: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 13:34:54: #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 13:34:54: #1 tags after filtering in treatment: 1290717 INFO @ Sat, 08 Aug 2020 13:34:54: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 08 Aug 2020 13:34:54: #1 finished! INFO @ Sat, 08 Aug 2020 13:34:54: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 13:34:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 13:34:54: #2 number of paired peaks: 7 WARNING @ Sat, 08 Aug 2020 13:34:54: Too few paired peaks (7) 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 13:34:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.05_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/dm3/SRX7917535/SRX7917535.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.05_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 13:35:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.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 13:35:01: #1 read tag files... INFO @ Sat, 08 Aug 2020 13:35:01: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 13:35:07: 1000000 INFO @ Sat, 08 Aug 2020 13:35:14: 2000000 INFO @ Sat, 08 Aug 2020 13:35:19: 3000000 INFO @ Sat, 08 Aug 2020 13:35:25: 4000000 INFO @ Sat, 08 Aug 2020 13:35:25: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 13:35:25: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 13:35:25: #1 total tags in treatment: 1655779 INFO @ Sat, 08 Aug 2020 13:35:25: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 13:35:25: #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 13:35:25: #1 tags after filtering in treatment: 1290717 INFO @ Sat, 08 Aug 2020 13:35:25: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 08 Aug 2020 13:35:25: #1 finished! INFO @ Sat, 08 Aug 2020 13:35:25: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 13:35:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 13:35:26: #2 number of paired peaks: 7 WARNING @ Sat, 08 Aug 2020 13:35:26: Too few paired peaks (7) 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 13:35:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.10_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/dm3/SRX7917535/SRX7917535.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.10_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 13:35:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.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 13:35:31: #1 read tag files... INFO @ Sat, 08 Aug 2020 13:35:31: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 13:35:38: 1000000 INFO @ Sat, 08 Aug 2020 13:35:45: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 08 Aug 2020 13:35:52: 3000000 BigWig に変換しました。 INFO @ Sat, 08 Aug 2020 13:35:59: 4000000 INFO @ Sat, 08 Aug 2020 13:35:59: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 13:35:59: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 13:35:59: #1 total tags in treatment: 1655779 INFO @ Sat, 08 Aug 2020 13:35:59: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 13:35:59: #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 13:35:59: #1 tags after filtering in treatment: 1290717 INFO @ Sat, 08 Aug 2020 13:35:59: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 08 Aug 2020 13:35:59: #1 finished! INFO @ Sat, 08 Aug 2020 13:35:59: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 13:35:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 13:35:59: #2 number of paired peaks: 7 WARNING @ Sat, 08 Aug 2020 13:35:59: Too few paired peaks (7) 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 13:35:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.20_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/SRX7917535/SRX7917535.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917535/SRX7917535.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling