Mercurial > repos > fubar > microsatbed

comparison seqrequester/src/utility/scripts/build_initial_repo.sh @ 1:1085e094cf5f draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/microsatbed commit 7ceb6658309a7ababe622b5d92e729e5470e22f0-dirty
author fubar
date Sat, 13 Jul 2024 12:39:06 +0000
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0:dd71d3167476 1:1085e094cf5f
1 #!/bin/sh
2
3 # You do not want to run this. It was used to create the initial repo by
4 # extracting the relevant bits from Canu and renaming things.
5
6 if [ `pwd` != "/scratch/git/canu-test" ] ; then
7 echo Wrong directory.
8 exit
9 fi
10
11 echo DELETE
12 rm -rf .git *
13
14 echo SYNC
15 rsync -a ../canu-orig/ .
16
17 echo REWRITE
18 ../git-filter-repo/git-filter-repo --replace-refs delete-no-add \
19 --path kmer/libutil \
20 --path kmer/libkmer \
21 --path kmer/libbio \
22 --path src/AS_UTL \
23 --path src/AS_global.C \
24 --path src/AS_global.H \
25 --path src/AS_global.c \
26 --path src/AS_global.h \
27 --path src/utility \
28 --path src/canu_version_update.pl \
29 --path src/Makefile \
30 --path src/main.mk \
31 --path 'README.license.GPL' \
32 --path 'README.licenses' \
33 --path 'README.md'
34
35 ../git-filter-repo/git-filter-repo \
36 --path src/AS_UTL/Makefile \
37 --path src/AS_UTL/main.mk --invert-paths
38
39 ../git-filter-repo/git-filter-repo \
40 --path-rename src/canu_version_update.pl:scripts/version_update.pl
41
42 ../git-filter-repo/git-filter-repo \
43 --path-rename src/AS_UTL:src/utility
44
45 ../git-filter-repo/git-filter-repo --path-rename src/AS_global.H:src/utility/runtime.H
46 ../git-filter-repo/git-filter-repo --path-rename src/AS_global.C:src/utility/runtime.C
47 ../git-filter-repo/git-filter-repo --path-rename src/AS_global.h:src/utility/runtime.h
48 ../git-filter-repo/git-filter-repo --path-rename src/AS_global.c:src/utility/runtime.c
49
50 ../git-filter-repo/git-filter-repo --path-rename src/utility/bitsTest.C:src/tests/bitsTest.C
51 ../git-filter-repo/git-filter-repo --path-rename src/utility/bitsTest.mk:src/tests/bitsTest.mk
52 ../git-filter-repo/git-filter-repo --path-rename src/utility/filesTest.C:src/tests/filesTest.C
53 ../git-filter-repo/git-filter-repo --path-rename src/utility/filesTest.mk:src/tests/filesTest.mk
54 ../git-filter-repo/git-filter-repo --path-rename src/utility/intervalListTest.C:src/tests/intervalListTest.C
55 ../git-filter-repo/git-filter-repo --path-rename src/utility/intervalListTest.mk:src/tests/intervalListTest.mk
56 ../git-filter-repo/git-filter-repo --path-rename src/utility/loggingTest.C:src/tests/loggingTest.C
57 ../git-filter-repo/git-filter-repo --path-rename src/utility/loggingTest.mk:src/tests/loggingTest.mk
58 ../git-filter-repo/git-filter-repo --path-rename src/utility/memoryMappedFileTest.C:src/tests/memoryMappedFileTest.C
59 ../git-filter-repo/git-filter-repo --path-rename src/utility/mt19937arTest.C:src/tests/mt19937arTest.C
60 ../git-filter-repo/git-filter-repo --path-rename src/utility/stddevTest.C:src/tests/stddevTest.C
61 ../git-filter-repo/git-filter-repo --path-rename src/utility/stddevTest.mk:src/tests/stddevTest.mk
62 ../git-filter-repo/git-filter-repo --path-rename src/utility/stringsTest.C:src/tests/stringsTest.C
63 ../git-filter-repo/git-filter-repo --path-rename src/utility/testRand.C:src/tests/randTest.C
64
65
66 # Delete all replace refs, since I can't seem to get them disabled.
67 git replace -d `git replace -l` > refs-deleted 2>&1
68
69
70 cp -fp ../NEW-Makefile src/Makefile
71 cp -fp ../NEW-main.mk src/main.mk
72 cp -fp ../NEW-runtime.C src/utility/runtime.C
73 cp -fp ../NEW-runtime.H src/utility/runtime.H
74 cp -fp ../NEW-types.H src/utility/types.H
75 cp -fp ../NEW-version_update.pl scripts/version_update.pl