Doesn't work wiki-graph-find-backlinks and wiki-graph

[dmytrodubinin]

Description

I have errors when try to find backlinks and show graph:

wiki-graph-find-backlinks:

Error detected while processing function wiki#graph#find_backlinks[7]..49[4]..<SNR>148_gather_nodes[
9]..wiki#cache#open[9]..9[29]..14:
line    5:
E474: Attempt to decode a blank string
E474: Failed to parse
E712: Argument of extend() must be a List or Dictionary
Press ENTER or type command to continue

wiki-graph-in:

Error detected while processing function wiki#graph#in:
line   24:
E117: Unknown function: links_to
Press ENTER or type command to continue

my config: fedora 35, neovim 0.6 with init.vim:

let g:wiki_root = '/D-disk/MEGA/Documents/wiki'
let g:wiki_filetypes = ['md']
let g:wiki_link_target_type = 'md'
let g:wiki_link_extension = '.md'
let g:wiki_tags_scan_num_lines = 20
	  
let g:wiki_tags_format_pattern = '\v%(^|\s)#\zs[^# ]+' " for #tag format
	  
"export settings
let g:wiki_export = {
    \ 'args' : '',
    \ 'from_format' : 'markdown',
    \ 'ext' : 'html',
    \ 'view' : v:false,
    \ 'output': fnamemodify(tempname(), ':h'),
    \}
	  
" format links
let g:wiki_map_link_create = 'FormatLinks'
	  
function FormatLinks(text) abort
  "return substitute(a:text, '\s\+', '_', 'g')
  return substitute(tolower(a:text), '\s\+', '_', 'g')
endfunction

[lervag]

I've pushed a minor update. I'm not convinced it will fix it for you, but please test.

I believe both errors are essentially the same and that the second with WikiGraphIn happens because the first error happened. If you try this one first you should see a similar error as the first one.

If the error is still there, please show me the contents of the cache files.

[dmytrodubinin]

After update the same problems is still here

[lervag]

Well. I'll repeat myself:

If the error is still there, please show me the contents of the cache files.

[dmytrodubinin]

for example:

# Habit Stacking

## Reference
- **Created on:** 
- **Source**: [Atomic Habits](Atomic_Habits.md) [James Clear](James_Clear)
- **Keywords**: [Permanent Notes](Permanent_Notes.md)
  - [Improving habits](Improving_habits.md) [Method](Method.md) [Implementation of habits](Implementation_of_habits.md)
- **Relevant Notes**:
  
## Notes

Habit stacking is a special form of an implementation intention. **Rather than pairing your new habit with a particular time and location, you pair it with a current habit.** This method, which was created by BJ Fogg as part of his Tiny Habits program, can be used to design an obvious cue for nearly any habit.

The habit stacking formula is:  `After/Before [CURRENT HABIT], I will [NEW HABIT]`

The habit stacking + temptation bundling formula is:
1.  After `[CURRENT HABIT]`, I will `[HABIT I NEED]`.
2.  After `[HABIT I NEED]`, I will `[HABIT I WANT]`.

if it's not the contents of the files, then where should I look cache files.?

[lervag]

The cache files are located in $XDG_CACHE_HOME/wiki.vim (if it exists) or ~/.cache/wiki.vim/ if not.

[dmytrodubinin]

capture.json:

{"uname": ["Linux"], "__validate": "cache_v1"}

graph%D-disk%MEGA%Documents%wiki.json: empty

tags.json:

{
  "/D-disk/MEGA/Documents/wiki/FileName.md": {
    "ftime": 1608900931,
    "tags": []
  },
  "many lines here": {},
  "/D-disk/MEGA/Documents/wiki/OtherFileName.md": {
    "ftime": 1612541188,
    "tags": []
  }
}

[lervag]

Can you update to latest version and check if it resolves your issue?

[dmytrodubinin]

Error the same but scanning but scanning takes much longer than it was before

[lervag]

Can you please show the error?

If you make a new directory outside of the wiki, e.g. /D-disk/MEGA/Documents/test, then copy a few of your wiki files there (including the index.md), then set let g:wiki_root = '/D-disk/MEGA/Documents/test'. Does the problem persist?

[dmytrodubinin]

1. I moved all files in other directory - error:

wiki: Scanning wiki graph nodes ...
Error detected while processing function wiki#graph#find_backlinks[7]..43[4]..<SNR>140_
gather_nodes[43]..13:
line   10:
E474: String "<ea>^A<e0><e0><80>O^F<9a>s<91>܁<b8>(^X<e3>ޔ<83><ce>y<e0>^A<c7>O<f1><a5><d
4>`<dd><c7>P^N^K" contains byte that does not start any UTF-8 character
Press ENTER or type command to continue

2. I move index.md and some other files - no errors!
3. I delete all folders (with files, images etc) inside test folder and keep all other files (396 files) - no errors!

[dmytrodubinin]

4. I keep all files inside test folder, and keep journal and _resources folders (for journal and files/images) - no error.

I think this option will suit me because I don’t really need files from other directories or they can be transferred manually. If it is difficult to solve the problem according to the description above, then I will leave it as I wrote above and close this issue

[lervag]

First, I'm very sorry for the late reply! Life's been very busy, and I never found the time to follow up (until now).

E474: String "<ea>^A<e0><e0><80>O^F<9a>s<91>܁<b8>(^X<e3>ޔ<83><ce>y<e0>^A<c7>O<f1><a5><d
4>`<dd><c7>P^N^K" contains byte that does not start any UTF-8 character

I believe this explains the issue, more or less: You have one or more documents with text that is not UTF-8, in which case the json_encode function does not work, here:

wiki.vim/autoload/wiki/cache.vim

Line 193 in e0f971d

call writefile([json_encode(self.data)], self.path)

See :help json_encode for related info. I would guess that you could reproduce if you have documents where the headings have some special characters that are not valid utf 8.

I think this option will suit me because I don’t really need files from other directories or they can be transferred manually. If it is difficult to solve the problem according to the description above, then I will leave it as I wrote above and close this issue.

I'm glad to hear that things work acceptably for now. But I would not mind trying to fix the issue. But to continue, it would be very useful to be able to reproduce. Perhaps you are able to provide an example file that forces the error?