Look at Page 16 as it shows the compression sleeve fittings (farrels) No flaring tool is needed. I called them caps (memory isn't so hot sometime), but they are called compression nut and bushing. There is different sleeves, one for nylon and copper, see the pictures on page 16. As far as the wrenches go. Like JB said they are hydraulic wrenches you make out of regular 3/8" box wrenches. Like the one in your picture. Put that in a vise and mount a fiber cut off wheel in an air grinder and grind a slot in the end so you can put it over the line / pipe. I have never seen a pump with a paper filter. They normally have brass screens and a felt filter held in with a spring wire clip on the bottom of the inlet.
I have been replacing and repairing BiJur lube systems for 50+ years. Like rat 427 said you can buy new pumps on eBay. Also check prices from a few companies as some buy from Bijurdelimon and double the price. The company below is the real company.
I have also cleaned the lines out by pumping kerosene through the pump or Stoddart solvent. Then fill with Vactra 2 way oil.