I have a velocity template (in a Confluence user macro) that looks like:
## This macro takes a jiraissues macro in the body with "Show Total Only" configured to TRUE.
## It then parses the return and puts a green check if the number returned is ZERO or a red X otherwise.
## #noparams
#set ($start = $body.indexOf("{") + 1)
#set ($end = $body.indexOf("}") )
Printf debugging...<br />
body.substring($start, $end) = $body.substring($start, $end) <br />
<ac:rich-text-body>
<ac:image ac:thumbnail="false">
## BUG BUG This substring is ALWAYS zero. Dunno why.
#if ($body.substring($start, $end) == "0")
<ri:url ri:value="/images/icons/emoticons/check.png" />
#else
<ri:url ri:value="/images/icons/emoticons/error.png" />
#end
</ac:image>
</ac:rich-text-body>
This template has a nested other velocity template that is configured by the user to query a DB and return the number of bugs that match some criteria. The idea is that if the number returned is ZERO, then everything is hunkydory. Otherwise, well... you get the picture.
Now, there's something CLEARLY screwed up in my thinking.
The $body string seems to returns something that looks like {0} issues.
The {0} seems like a variable or something, but hell if I can find any documentation.
Questions
Which template gets evaluated first?
Can I even base the logic of one template on the output of another?
Why is my life like this? Never mind, I know the answer to that one.
A string like {0} suggests that what you see isn't the actual end result, but a message template that is supposed to be filled in with real data. And to me it looks like a key used by MessageFormat, but it could be something else.
Do you happen to have the code for the inner macro as well?
Related
I have 25K tif files (please don't ask why) that I want to organize into stacks on image J. Basically for each region of interest (ROI), there are 50 images which breaks down into 25 z-planes for two channels. I want everything in a single stack. And I'd like to batch process the whole folder without opening 50 images 500 times at a time. I've attached a picture of what the file names look like:
Folder organization
r01c01f01p01-ch1.tif - the first 10 characters are unique ID to each ROI, then plane number (p01) then channel - ch1 or ch2, then file extension
Here's what I have so far (which I cobbled together based on other macros so this may not make sense...).This is using the ImageJ macros language.
//Processing loop to process each file in the folder.
for (i=0; i<list.length; i++) {
showProgress(i+1, list.length);
if (endsWith(list[i], ".tif")) { // skip the subfolder (I create a subfolder earlier in the macros)
print("-- Processing file: " + list[i] + " --");
open(dir+list[i]);
imageTitle= getTitle();
newTitle = substring(imageTitle, 0, lengthOf(imageTitle)-10); // r01c01f01p, cutting off plane number and then the rest to just get the ROI ID
//This is where I'm stuck:
// find all files containing newTitle and open them (which would be 50 at a time), then run the following macros on them
run("Images to Stack", "name=Ch1 title=[] use");
run("Duplicate...", "title=Ch2 duplicate");
selectWindow("Ch1");
run("Slice Remover", "first=1 last=50 increment=2");
selectWindow("Ch2");
run("Slice Remover", "first=2 last=50 increment=2");
run("Merge Channels...", "c1=Ch1 c2=Ch2 create");
saveAs("tiff", dirNew + newTitle + "_Stack.tif");
//Close(All)?
}
}
print("-- Done --");
showStatus("Finished.");
setBatchMode(false); // Exit batch mode
run("Collect Garbage");
Thank you!
You could do something like:
for (plane=1; plane<51; plane++) {
open(newTitle+plane+"-ch1.tif");
open(newTitle+place+"-ch2.tif");
}
Which would take care of the opening. I would be inclined to have a loop prior to this which would collate the number of unique "newTitle"'s, as your current setup would end up doing something like opening the first item, assembling the combined TIF, and then repeat the process 25K times if I understand it correctly.
Given that you know the number of unique "r01c01f01p" values, in principle you could do a set of stacked loops akin to:
newTitleArray = newArray();
for (r=1; r<50; r++) {
titleBit = "r0" + toString(r);
for (c=1; c<501; c++) {
titleBit = titleBit + "f0"...
Alternatively, you could set up a loop where you check for unique "r01c01f01p" values and add them to an array. In any case, you'd replace the for "list" loop with the for "newTitleArray" loop, and then continue onto the opener I listed above, instead of your existing one.
If I am understanding correctly, it seems like you might do well to stack by channel first, then merge the two. I am not 100% sure, but I think you could potentially use a macro I have already created to do that. It was originally meant to batch process terabytes of 5D data, so it should be very comfortable handling your volume of images. It is not exactly what you are looking for, but should be super easy to modify (I went a little overboard with the commenting in the code), and I think the only thing it does that you might rather it not is produce max projects from the inputs. I'll throw a link here and look for your reply. If it's of interest, let me know and we can work to make it suit your needs together :-) Otherwise, if you could provide a little more detail about where you're getting stuck and/or where I may have misunderstood, I will do my very best to help!
https://github.com/evanjkiely/FIJIMacros
I am new to coding, and would like help in understanding the script used by the PsychoPy program.
To be more specific, I would like to understand the codes that are in line 6 to 15. I am aware that this is used to manage the multiple trials, but I am hoping someone can help me clarify those bits? I also noted that removing the codes from line 6-8 doesn't change the experiment, but removing the codes from line 10-15 essentially stop the experiment from running.
trialsAll = data.TrialHandler(trialList=data.importConditions('trialType.xlsx'), nReps=10, method='random', name='trialsAll', dataTypes='corr')
thisExp = data.ExperimentHandler(name='Ours')
thisExp.addLoop(trialsAll) #adds a loop to the experiment
thisTrial = trialsAll.trialList[0]
if thisTrial != None:
for paramName in thisTrial.keys():
exec(paramName + '= thisTrial.' + paramName)
# Loop through trials
for thisTrial in trialsAll:
currentLoop=trialsAll
if thisTrial != None:
for paramName in thisTrial.keys():
exec(paramName + '=thisTrial.' + paramName)
My second question would be about getting responses. Is there a reason that thisResp is equalled to None?
#get response
thisResp=None
while thisResp==None:
allKeys=event.waitKeys()
Thanks a lot for any help. I appreciate it.
Regards,
Cash
if thisTrial != None:
for paramName in thisTrial.keys():
exec(paramName + '= thisTrial.' + paramName)
This code allows the use of abbreviations. For example, say your conditions file has a field called 'angle', you can refer to this directly rather than via the keys of that trial's dictionary (e.g. thisTrial['angle'] ) or using dot notation ( thisTrial.angle ). i.e., in this example:
angle = thisTrial.angle
for thisTrial in trialsAll:
is fundamental to running a psychoPy trial loop. It will cycle though each trial that is contained in the TrialHandler object that is created to manage trials, connected to a given conditions file.
#get response
thisResp=None
while thisResp==None:
allKeys=event.waitKeys()
The line 'while thisResp==None:' requires that the variable 'thisResp' actually exists if we are going to be able to check its value. So in the immediately preceding line, it is created and given an initial null value so that the next line will run OK. Note that at this stage, it is just an arbitrary variable, which doesn't have any actual connection to the subject's response. That will presumably occur later in the code, when it gets assigned a value other than None.
I've searched high and low for an answer on this, but I'm either missing something, or I just can't find anything in this context.
Background - trying to avoid spaghetti frenzy with a little casual project I'm starting; part of this will involve mainly just calls to a mysql database, displaying table content and so on. Simply put, like a CRM I guess.
I may be way off base here, but I want to be able to create my sql calls as functions, which will help if/when I tweak and tune, as well as creating a cleaner code for what I'm looking to do.
So, without further ado, I have this as a demomstration:
echo "<table>";
selectall('actions','content',$mysqli);
echo "</table><br><br>";
What this does is show all rows from my table of 'actions. "content" is just an example field name I'm passing through that I want to display, as it is the main human-relevant field name in that table. I'm also passing $mysqli through here for my function db call.
My function looks like this:
function selectall($s_table,$s_content,$mysqli){
$query = "SELECT * FROM " . $s_table;
$resource = $mysqli->query($query);
if ( !$resource ) throw new Exception($db->error);
while ( $row = $resource->fetch_assoc() ) {
$id = $row['id'];
echo "<tr><td>{$row[$s_content]}</td></tr>";
}
$resource->free();
$mysqli->close();
}
However.... it doesn't work, and it seems to throw a wobbly saying:
Warning: mysqli::query(): Couldn't fetch mysqli
This points to the action within the line $resource = $mysqli->query($query);
I know the function and everything is ok, as if I restate and declare $mysqli within the first line of the function, like so...
$mysqli = new mysqli(username password and so on in here);
... it works spot on.
$mysqli exists and works within the same code that is passing the variable within the function too.
This is early stages, so by shuffling the code around trying to poke the $mysqli pass into life I have perhaps made the code a little messier that intended, so try not to worry too much about that.
Anyone any ideas why it doesn't like this?
D'oh...
I had a
$mysqli->close();
in the lines above. Solved myself.
For reference, this is my function:
function selectall($s_table,$s_field,$mysqli){
if ($mysqli->connect_error) {die('Connect Error (' . $mysqli->connect_errno . ') '. $mysqli->connect_error);}
$s_table = preg_replace('/[^0-9a-zA-Z_]/', '', $s_table); // Cleans up the table name variable
$s_field = preg_replace('/[^0-9a-zA-Z_]/', '', $s_field); // Cleans up the field name variable
$query = "SELECT * FROM " . $s_table; // Adds passed table name to the select all
$resource = $mysqli->query($query);
if ( !$resource ) throw new Exception($db->error);
while ( $row = $resource->fetch_assoc() ) {
echo "<tr><td>{$row[$s_field]}</td></tr>"; // Content for each row of the select all
}
$resource->free();
$mysqli->close();
}
As you can see, I've also tried to protect the variables that enter the function.
This can be called via:
selectall('actions','content',$mysqli);
In this context, I want to view all the entries in the 'actions' table by the field name 'content'. This function, with some code above and below for a table, will create a new row for each entry.
I'll probably evolve a few, already created on that includes a delete button at the end of the line which is 'selectalldel'.
Open to comments on whether this actually is worthwhile, but thought I'd post up my corrected stupidity in case anyone finds this useful.
I was wondering how I would go about checking to see if a table contains a value in a certain column.
I need to check if the column 'e-mail' contains an e-mail someone is trying to register with, and if something exists, do nothing, however, if nothing exists, insert the data into the database.
All I need to do is check if the e-mail column contains the value the user is registering with.
I'm using the RedBeanPHP ORM, I can do this without using it but I need to use that for program guidelines.
I've tried finding them but if they don't exist it returns an error within the redbean PHP file. Here's the error:Fatal error: Call to a member function find() on a non-object in /home/aeterna/www/user/rb.php on line 2433
Here's the code that I'm using when trying this:
function searchDatabase($email) {
return R::findOne('users', 'email LIKE "' . $email . '"');
}
My approach on the function would be
function searchDatabase($email) {
$data = array('email' => $email);
$user = R::findOne('users', 'email LIKE :email, $data);
if (!empty($user)) {
// do stuff here
} // end if
} // end function
It's a bit more clean and in your function
Seems like you are not connected to a database.
Have you done R::setup() before R::find()?
RedBeanPHP raises this error if it can't find the R::$redbean instance, the facade static functions just route calls to the $redbean object (to hide all object oriented fuzzyness for people who dont like that sort of thing).
However you need to bootstrap the facade using R::setup(). Normally you can start using RB with just two lines:
require('rb.php'); //cant make this any simpler :(
R::setup(); //this could be done in rb.php but people would not like that ;)
//and then go...
R::find( ... );
I recommend to check whether the $redbean object is available or whether for some reason the code flow has skipped the R::setup() boostrap method.
Edited to account for your updated question:
According to the error message, the error is happening inside the function find() in rb.php on line 2433. I'm guessing that rb.php is the RedBean package.
Make sure you've included rb.php in your script and set up your database, according to the instructions in the RedBean Manual.
As a starting point, look at what it's trying to do on line 2433 in rb.php. It appears to be calling a method on an invalid object. Figure out where that object is being created and why it's invalid. Maybe the find function was supplied with bad parameters.
Feel free to update your question by pasting the entirety of the find() function in rb.php and please indicate which line is 2433. If the function is too lengthy, you can paste it on a site like pastebin.com and link to it from here.
Your error sounds like you haven't done R::setup() yet.
My approach to performing the check you want would be something like this:
$count = count(R::find('users', 'email LIKE :email', array(':email' => $email)));
if($count === 0)
{
$user = R::dispense('users');
$user->name = $name;
$user->email = $email;
$user->dob = $dob;
R::store($user);
}
I don't know if it is this basic or not, but with SQL (using PHP for variables), a query could look like
$lookup = 'customerID';
$result = mysql_fetch_array(mysql_query("SELECT columnName IN tableName WHERE id='".$lookup."' LIMIT 1"));
$exists = is_null($result['columnName'])?false:true;
If you're just trying to find a single value in a database, you should always limit your result to 1, that way, if it is found in the first record, your query will stop.
Hope this helps
This code works perfectly:
$f = new phpFlickr(FLICKR_API_KEY, FLICKR_API_SECRET);
$f->setToken(FLICKR_AUTH_TOKEN);
// Next line is just WordPress providing the photoset ID.
$mySetID = get_post_meta($post->ID, 'Flickr set ID', true);
$mySet = $f->photosets_getPhotos($mySetID, NULL, NULL);
foreach ($mySet['photoset']['photo'] as $photo) {
echo '<div><img src="'. $f->buildPhotoURL($photo, 'large') .'" alt="" /></div>';
}
...until buildPhotoURL is told to fetch the "original" size, at which point the URL returned is something like "http://farm6.static.flickr.com/5607/5332878962__o." which is obviously not valid.
While everything I've found through searches seems to agree that doing this requires some "originalsecret" and "originalformat" values that are barely mentioned in Flickr's own documentation, and phpFlickr does seem to try and use them, they're clearly not being fetched by default and I've yet to see someone post code for how to actually provide them. I've tried calling $f->photos_getInfo() just before the echo line, passing in various things to no effect and I'm starting to feel like I'm missing something everyone thinks is obvious, even though nobody has ever produced a valid response(that I can find) to repeated questions about it on the phpFlickr forum.
Note:
This is a Pro account.
We are authenticating properly(these are private sets and they work fine for all other sizes).
Access to the original size in Flickr's privacy settings is set to "Anyone."
Ideas?
I know it's a little late and I'm sure you've figured out the problem by now, but I wanted to share a related answer, because I just spent some time wrestling with a similar issue, and as you said, answers on this subject can't be found anywhere.
To get the information needed to display original size images from a set, the following url should work:
http://api.flickr.com/services/rest/?&method=flickr.photosets.getPhotos&api_key=YOURAPIKEYNUMBER&photoset_id=YOURSETIDNUMBER&per_page=100&sort=date-posted-desc&extras=original_format&format=json&jsoncallback=?
Of course all of the variables are customizable to your needs, but that's just one example which shows the first 100 images in a set sorted descending by date with the original image formatting information attached including the important "original" secret code
To display the images the javascript you can use is
'http://farm' + item.farm + '.static.flickr.com/' + item.server + '/' + item.id + '_' + item.originalsecret + '_' + 'o' + '.' + item.originalformat;
The main sticking point is "&extras=original_format" because that gives you both the originalsecret and originalformat which you need to call an original size image from flickr. I was using the SuperSized background plugin when I ran into the original size problem.
The photosets_getPhotos() method doesn't return the full array for $photo. It returns some basic info about $photo but not $photo['originalformat'], which is needed by buildPhotoURL().
You can tell photosets_getPhotos() to return the original format as an optional extra. This gives buildPhotoURL() everything it needs.
Example:
$mySet = $f->photosets_getPhotos($mySetID, 'original_format', NULL);
foreach ($mySet['photoset']['photo'] as $photo) {
echo '<div><img src="'. $f->buildPhotoURL($photo, 'original') .'" alt="" /></div>';
}
Even better, you can have photosets_getPhotos() return the URL for the original photo itself.
Example:
$mySet = $f->photosets_getPhotos($mySetID, 'url_o', NULL);
foreach ($mySet['photoset']['photo'] as $photo) {
echo '<div><img src="'. $photo['url_o'] .'" alt="" /></div>';
}