File: Makefile

package info (click to toggle)
trinityrnaseq 2.11.0%2Bdfsg-6
  • links: PTS, VCS
  • area: main
  • in suites: bookworm, bullseye, sid
  • size: 417,528 kB
  • sloc: perl: 48,420; cpp: 17,749; java: 12,695; python: 3,124; sh: 1,030; ansic: 983; makefile: 688; xml: 62
file content (40 lines) | stat: -rw-r--r-- 1,039 bytes parent folder | download
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40


all: paired single samples_file

test: all

paired:
	${TRINITY_HOME}/Analysis/SuperTranscripts/AllelicVariants/run_variant_calling.py \
               --st_fa supertranscripts.fasta \
               --st_gtf supertranscripts.gtf \
               -p whitefly_rnaseq_1.fq.gz whitefly_rnaseq_2.fq.gz \
               -o test_varcalling_paired





test: all

single:
	${TRINITY_HOME}/Analysis/SuperTranscripts/AllelicVariants/run_variant_calling.py \
               --st_fa supertranscripts.fasta \
               --st_gtf supertranscripts.gtf \
               -s whitefly_rnaseq_1.fq.gz \
               -o test_varcalling_single


samples_file:
	${TRINITY_HOME}/Analysis/SuperTranscripts/AllelicVariants/run_variant_calling.py \
               --st_fa supertranscripts.fasta \
               --st_gtf supertranscripts.gtf \
               -S samples_file.txt \
               -o test_varcalling_samplesfile



clean:
	rm -f ./*.log ./*.dict ./*.fai
	rm -rf ./test_varcalling_paired ./test_varcalling_single ./test_varcalling_samplesfile