.obsidian/workspace.json
... ...
@@ -13,12 +13,12 @@
13 13
"state": {
14 14
"type": "markdown",
15 15
"state": {
16
- "file": "downloads.md",
17
- "mode": "preview",
16
+ "file": "Home.md",
17
+ "mode": "source",
18 18
"source": true
19 19
},
20 20
"icon": "lucide-file",
21
- "title": "downloads"
21
+ "title": "Home"
22 22
}
23 23
}
24 24
]
... ...
@@ -175,11 +175,12 @@
175 175
},
176 176
"active": "2a5b58d4cf8b7f2c",
177 177
"lastOpenFiles": [
178
+ "getting_started.md",
179
+ "downloads.md",
178 180
"client_usage.md",
179 181
"client_install.md",
180 182
"client_CLI_install.md",
181 183
"_Sidebar.md",
182
- "Home.md",
183
- "downloads.md"
184
+ "Home.md"
184 185
]
185 186
}
... ...
\ No newline at end of file
Home.md
... ...
@@ -5,22 +5,51 @@
5 5
6 6
[Download the BioGrids Installation Manager](downloads.md), GUI or CLI.
7 7
8
-#### Source the BioGrids environment:
8
+#### Start the BioGrids environment:
9 9
10 10
```
11
-source /programs/biogrids.shrc
11
+$ source /programs/biogrids.shrc
12
+
13
+********************************************************************************
14
+
15
+                          **Software Support by BioGrids**
16
+
17
+********************************************************************************
18
+
19
+ Developed with support from HMS Tools-and-Technologies fund.
20
+
21
+ If your use of BioGrids compiled software was an important element in 
22
+
23
+ your publication, please include the following statement in your work:
24
+
25
+ "Software used in the project was installed and configured by BioGrids 
26
+
27
+ (cite: eLife 2013;2:e01456, Collaboration gets the most out of software.)"
28
+
29
+********************************************************************************
30
+
31
+This BioGrids installation last updated: 2025-02-13
32
+
33
+ Please submit bug reports and help requests to:  help@biogrids.org.
34
+
35
+           **For additional information visit https://biogrids.org/wiki**
36
+
37
+********************************************************************************
38
+
39
+********************************************************************************
12 40
```
13 41
14 42
15 43
16 44
#### List available titles:
17 45
18
-```
19 46
Linux:
20
-cat /programs/x86_64-linux/biogrids_x86_64-linux
21
-
47
+```
48
+$ cat /programs/x86_64-linux/biogrids_x86_64-linux
49
+```
22 50
Mac:
23
-cat /programs//i386-mac/biogrids_i386-mac
51
+```
52
+$ cat /programs//i386-mac/biogrids_i386-mac
24 53
```
25 54
26 55
... ...
@@ -29,32 +58,31 @@ cat /programs//i386-mac/biogrids_i386-mac
29 58
30 59
```
31 60
$ biogrids-info -l samtools
32
-
33
-
34 61
Version information for: /programs/x86_64-linux/samtools
35 62
36
-Default version: 1.14
37
-In-use version: 1.14
63
+Default version: 1.21
64
+In-use version: 1.21
38 65
39
-Installed versions: 1.14 1.13 1.12 1.10 1.9 1.8 1.7 1.6 1.5 1.4.1 1.3.1 1.3 0.1.19
40
-Other available versions: 1.13 1.12 1.10 1.9 1.8 1.7 1.6 1.5 1.4.1 1.3.1 1.3 0.1.19
66
+Installed versions: 1.21 1.20 1.19.2 1.18 1.17 1.16.1 1.16 1.15.1 1.15 1.14 1.13 1.12 1.10 1.9 1.8 1.7 1.6 1.5 1.4.1 1.3.1 1.3 0.1.19 0.1.19_r8
67
+Other available versions: 1.20 1.19.2 1.18 1.17 1.16.1 1.16 1.15.1 1.15 1.14 1.13 1.12 1.10 1.9 1.8 1.7 1.6 1.5 1.4.1 1.3.1 1.3 0.1.19 0.1.19_r8
41 68
Overrides use this shell variable: SAMTOOLS_X
42 69
```
43 70
44 71
#### Use a specific version of a title
45 72
46
-```
47
-
48 73
On Linux machines use TITLE_X:
49 74
50
- $ export SAMTOOLS_X=1.12
51
- $ samtools
75
+```
76
+$ export SAMTOOLS_X=1.12
77
+$ samtools
52 78
53 79
Program: samtools (Tools for alignments in the SAM format)
54 80
Version: 1.12 (using htslib 1.12)
81
+```
55 82
56
-On Macs use TITLE_M:
57 83
84
+On Macs use TITLE_M:
85
+```
58 86
$ export SAMTOOLS_M=1.12
59 87
$ samtools
60 88
... ...
@@ -67,6 +95,10 @@ Version: 1.12 (using htslib 1.12)
67 95
68 96
```
69 97
$ biogrids-list samtools
98
+```
99
+
100
+
101
+```
70 102
71 103
ace2sam md5fa samtools.pl
72 104
blast2sam.pl md5sum-lite seq_cache_populate.pl